METHODS AND SYSTEMS FOR ANALYZING TARGETABLE PATHOLOGIC PROCESSES IN COVID-19 VIA GENE EXPRESSION ANALYSIS

BACKGROUND

SARS-CoV2 is a coronavirus and causative agent of the COVID-19 pandemic. COVID-19 typically causes mild respiratory symptoms, but may escalate to acute respiratory distress syndrome (ARDs) with an increased risk of respiratory failure and death. However, the trajectory of disease progression and the status of affected tissues in COVID-19 patients has not been elucidated. A comprehensive analysis of gene expression data from the blood, lung, and airway of COVID-19 patients is performed to investigate the host response to SARS-CoV2 infection. Results indicate that COVID-19 pathogenesis is driven by populations of myeloid-lineage cells with highly inflammatory but distinct transcriptional signatures, suggesting a progression in activation from the periphery to the lung tissue. In addition, through analysis of immune cells and inflammatory pathways enriched in each compartment, a model of the systemic response to SARS-CoV2 is constructed, and therapeutics targeting key upstream regulators of pathways contributing to COVID-19 pathogenesis are identified.

SUMMARY

In an aspect, the present disclosure provides a method of identifying one or more records having a specific phenotype, the method comprising: receiving a plurality of first records, wherein each first record is associated with one or more of a plurality of phenotypes; receiving a plurality of second records, wherein each second record is associated with one or more of the plurality of phenotypes, and wherein the plurality of second records and the plurality of first records are non-overlapping; applying a machine learning algorithm to at least one first record and at least one second record to determine a classifier; receiving a plurality of third records, wherein the third records are distinct from the plurality of first records and the plurality of second records; and applying the classifier to the plurality of third records to identify one or more third records associated with the specific phenotype.

In some embodiments, the elastic generalized linear model classifier employs an elastic penalty of about 0.8 to about 1. In some embodiments, the elastic generalized linear model classifier employs an elastic penalty of at least about 0.8, about 0.825, about 0.85, about 0.875, about 0.9, about 0.925, about 0.95, about 0.975, or about 1. In some embodiments, the elastic generalized linear model classifier employs an elastic penalty of at most about 0.8, about 0.825, about 0.85, about 0.875, about 0.9, about 0.925, about 0.95, about 0.975, or about 1. In some embodiments, the elastic generalized linear model classifier employs an elastic penalty of about 0.8 to about 0.825, about 0.8 to about 0.85, about 0.8 to about 0.875, about 0.8 to about 0.9, about 0.8 to about 0.925, about 0.8 to about 0.95, about 0.8 to about 0.975, about 0.8 to about 1, about 0.825 to about 0.85, about 0.825 to about 0.875, about 0.825 to about 0.9, about 0.825 to about 0.925, about 0.825 to about 0.95, about 0.825 to about 0.975, about 0.825 to about 1, about 0.85 to about 0.875, about 0.85 to about 0.9, about 0.85 to about 0.925, about 0.85 to about 0.95, about 0.85 to about 0.975, about 0.85 to about 1, about 0.875 to about 0.9, about 0.875 to about 0.925, about 0.875 to about 0.95, about 0.875 to about 0.975, about 0.875 to about 1, about 0.9 to about 0.925, about 0.9 to about 0.95, about 0.9 to about 0.975, about 0.9 to about 1, about 0.925 to about 0.95, about 0.925 to about 0.975, about 0.925 to about 1, about 0.95 to about 0.975, about 0.95 to about 1, or about 0.975 to about 1. In some embodiments, the elastic generalized linear model classifier employs an elastic penalty of about 0.8, about 0.825, about 0.85, about 0.875, about 0.9, about 0.925, about 0.95, about 0.975, or about 1.

In some embodiments, the k-nearest neighbors classifier employs a K value of the size of the plurality of distinct first data sets, wherein k is about 1 to about 20. In some embodiments, the k-nearest neighbors classifier employs a K value of the size of the plurality of distinct first data sets, wherein k is at least about 1, about 2, about 3, about 4, about 5, about 6, about 8, about 10, about 12, about 14, about 16, or about 20. In some embodiments, the k-nearest neighbors classifier employs a K value of the size of the plurality of distinct first data sets, wherein k is at most about 1, about 2, about 3, about 4, about 5, about 6, about 8, about 10, about 12, about 14, about 16, or about 20. In some embodiments, the k-nearest neighbors classifier employs a K value of the size of the plurality of distinct first data sets, wherein k is about 1 to about 2, about 1 to about 3, about 1 to about 4, about 1 to about 5, about 1 to about 6, about 1 to about 8, about 1 to about 10, about 1 to about 12, about 1 to about 14, about 1 to about 16, about 1 to about 20, about 2 to about 3, about 2 to about 4, about 2 to about 5, about 2 to about 6, about 2 to about 8, about 2 to about 10, about 2 to about 12, about 2 to about 14, about 2 to about 16, about 2 to about 20, about 3 to about 4, about 3 to about 5, about 3 to about 6, about 3 to about 8, about 3 to about 10, about 3 to about 12, about 3 to about 14, about 3 to about 16, about 3 to about 20, about 4 to about 5, about 4 to about 6, about 4 to about 8, about 4 to about 10, about 4 to about 12, about 4 to about 14, about 4 to about 16, about 4 to about 20, about 5 to about 6, about 5 to about 8, about 5 to about 10, about 5 to about 12, about 5 to about 14, about 5 to about 16, about 5 to about 20, about 6 to about 8, about 6 to about 10, about 6 to about 12, about 6 to about 14, about 6 to about 16, about 6 to about 20, about 8 to about 10, about 8 to about 12, about 8 to about 14, about 8 to about 16, about 8 to about 20, about 10 to about 12, about 10 to about 14, about 10 to about 16, about 10 to about 20, about 12 to about 14, about 12 to about 16, about 12 to about 20, about 14 to about 16, about 14 to about 20, or about 16 to about 20. In some embodiments, the k-nearest neighbors classifier employs a K value of the size of the plurality of distinct first data sets, wherein k is about 1, about 2, about 3, about 4, about 5, about 6, about 8, about 10, about 12, about 14, about 16, or about 20.

In some embodiments, the K-value of the random forest classifier is incremented by 1 if the k-value is an even number. In some embodiments, applying a machine learning algorithm to the third data set comprises applying a machine learning algorithm to a plurality of unique third data sets.

In some embodiments, the classifier identifies said one or more third records associated with the specific phenotype with an accuracy of about 70% to about 100%. In some embodiments, the classifier identifies said one or more third records associated with the specific phenotype with an accuracy of at least about 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%. In some embodiments, the classifier identifies said one or more third records associated with the specific phenotype with an accuracy of at most about 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%. In some embodiments, the classifier identifies said one or more third records associated with the specific phenotype with an accuracy of about 70% to about 75%, about 70% to about 80%, about 70% to about 85%, about 70% to about 90%, about 70% to about 95%, about 70% to about 100%, about 75% to about 80%, about 75% to about 85%, about 75% to about 90%, about 75% to about 95%, about 75% to about 100%, about 80% to about 85%, about 80% to about 90%, about 80% to about 95%, about 80% to about 100%, about 85% to about 90%, about 85% to about 95%, about 85% to about 100%, about 90% to about 95%, about 90% to about 100%, or about 95% to about 100%. In some embodiments, the classifier identifies said one or more third records associated with the specific phenotype with an accuracy of about 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%.

In some embodiments, the classifier herein enables a specific phenotype association sensitivity of about 70% to about 100%. In some embodiments, the classifier herein enables a specific phenotype association sensitivity of at least 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%. In some embodiments, the classifier herein enables a specific phenotype association sensitivity of at most 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%. In some embodiments, the classifier herein enables a specific phenotype association sensitivity of about 70% to about 75%, about 70% to about 80%, about 70% to about 85%, about 70% to about 90%, about 70% to about 95%, about 70% to about 100%, about 75% to about 80%, about 75% to about 85%, about 75% to about 90%, about 75% to about 95%, about 75% to about 100%, about 80% to about 85%, about 80% to about 90%, about 80% to about 95%, about 80% to about 100%, about 85% to about 90%, about 85% to about 95%, about 85% to about 100%, about 90% to about 95%, about 90% to about 100%, or about 95% to about 100%. In some embodiments, the classifier herein enables a specific phenotype association sensitivity of about 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%.

In some embodiments, the classifier herein enables a specific phenotype association specificity of about 70% to about 100%. In some embodiments, the classifier herein enables a specific phenotype association specificity of at least 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%. In some embodiments, the classifier herein enables a specific phenotype association specificity of at most 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%. In some embodiments, the classifier herein enables a specific phenotype association specificity of about 70% to about 75%, about 70% to about 80%, about 70% to about 85%, about 70% to about 90%, about 70% to about 95%, about 70% to about 100%, about 75% to about 80%, about 75% to about 85%, about 75% to about 90%, about 75% to about 95%, about 75% to about 100%, about 80% to about 85%, about 80% to about 90%, about 80% to about 95%, about 80% to about 100%, about 85% to about 90%, about 85% to about 95%, about 85% to about 100%, about 90% to about 95%, about 90% to about 100%, or about 95% to about 100%. In some embodiments, the classifier herein enables a specific phenotype association specificity of about 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100%.

In some embodiments, the method further comprises filtering the first records, the second records, or both. In some embodiments, the filtering comprises removing outliers, removing background noise, removing data without annotation data, normalizing, scaling, variance correcting, Weighted Gene Co-expression Network Analysis, enrichment analysis, dimensionality reduction, or any combination thereof. In some embodiments, the normalizing is performed by Robust Multi-Array Analysis (RMA), Guanine Cytosine Robust Multi-Array Analysis (GCRMA), Linear Models for Microarray Data, variance stabilizing transformation (VST), normal-exponential quantile correction (NEQC), or any combination thereof. In some embodiments, the variance correction comprises employing a local empirical Bayesian shrinkage, adjusting the p-values for multiple hypothesis testing using the Benjamini-Hochberg correction, and removing all data with a set false discovery rate

In some embodiments, the false discovery rate is about 0.000001 to about 0.2. In some embodiments, the false discovery rate is at least about 0.000001. In some embodiments, the false discovery rate is at most about 0.2. In some embodiments, the false discovery rate is about 0.000001 to about 0.00005, about 0.000001 to about 0.00001, about 0.000001 to about 0.0005, about 0.000001 to about 0.0001, about 0.000001 to about 0.005, about 0.000001 to about 0.001, about 0.000001 to about 0.05, about 0.000001 to about 0.01, about 0.000001 to about 0.2, about 0.00005 to about 0.00001, about 0.00005 to about 0.0005, about 0.00005 to about 0.0001, about 0.00005 to about 0.005, about 0.00005 to about 0.001, about 0.00005 to about 0.05, about 0.00005 to about 0.01, about 0.00005 to about 0.2, about 0.00001 to about 0.0005, about 0.00001 to about 0.0001, about 0.00001 to about 0.005, about 0.00001 to about 0.001, about 0.00001 to about 0.05, about 0.00001 to about 0.01, about 0.00001 to about 0.2, about 0.0005 to about 0.0001, about 0.0005 to about 0.005, about 0.0005 to about 0.001, about 0.0005 to about 0.05, about 0.0005 to about 0.01, about 0.0005 to about 0.2, about 0.0001 to about 0.005, about 0.0001 to about 0.001, about 0.0001 to about 0.05, about 0.0001 to about 0.01, about 0.0001 to about 0.2, about 0.005 to about 0.001, about 0.005 to about 0.05, about 0.005 to about 0.01, about 0.005 to about 0.2, about 0.001 to about 0.05, about 0.001 to about 0.01, about 0.001 to about 0.2, about 0.05 to about 0.01, about 0.05 to about 0.2, or about 0.01 to about 0.2. In some embodiments, the false discovery rate is about 0.000001, about 0.00005, about 0.00001, about 0.0005, about 0.0001, about 0.005, about 0.001, about 0.05, about 0.01, or about 0.2.

In some embodiments, the Weighted Gene Co-expression Network Analysis comprises calculating a topology matrix, clustering the data based on the topology matrix, and correlating module eigenvalues for traits on a linear scale by Pearson correlation, for nonparametric traits by Spearman correlation, and for dichotomous traits by point-biserial correlation or t-test. The Pearson correlation or the Product Moment Correlation Coefficient (PMCC), is a number between −1 and 1 that indicates the extent to which two variables are linearly related. The Spearman correlation is a nonparametric measure of rank correlation; statistical dependence between the rankings of two variables.

In some embodiments, the one or more records having a specific phenotype correspond to one or more subjects, and the method further comprises identifying the one or more subjects as (i) having a diagnosis of a disease state or condition, (ii) having a prognosis of a disease state or condition, (iii) being suitable or not suitable for enrollment in a clinical trial for a disease state or condition, (iv) being suitable or not suitable for being administered a therapeutic regimen configured to treat a disease state or condition, (v) having an efficacy or not having an efficacy of a therapeutic regimen configured to treat a disease state or condition, based at least in part on the specific phenotype corresponding to the one or more subjects.

In another aspect, the present disclosure provides a non-transitory computer-readable storage media encoded with a computer program including instructions executable by a processor to create an application for identifying one or more records having a specific phenotype, the application comprising: a first receiving module receiving a plurality of first records, wherein each first record is associated with one or more of a plurality of phenotypes; a second receiving module receiving a plurality of second records, wherein each second record is associated with one or more of the plurality of phenotypes, and wherein the plurality of second records and the plurality of first records are non-overlapping; a machine learning module applying a machine learning algorithm to at least one first record and at least one second record to determine a classifier; a third receiving module receiving a plurality of third records, wherein the third records are distinct from the plurality of first records and the plurality of second records; and a classifying module applying the classifier to the plurality of third records to identify one or more third records associated with the specific phenotype.

In some embodiments, the first records and the second records comprise nucleic acid sequencing data, transcriptome data, genome data, epigenome data, proteome data, metabolome data, virome data, metabolome data, methylome data, lipidomic data, lineage-ome data, nucleosomal occupancy data, a genetic variant, a gene fusion, an insertion or deletion (indel), or any combination thereof. In some embodiments, the first records and the second records are in different formats. In some embodiments, the first records and the second records are from different sources, different studies, or both. In some embodiments, the phenotype comprises a disease state, an organ involvement, a medication response, or any combination thereof. In some embodiments, the classifier comprises an elastic generalized linear model classifier, a k-nearest neighbors classifier, a random forest classifier, or any combination thereof. In some embodiments, the elastic generalized linear model classifier employs an elastic penalty of about 0.9. In some embodiments, the k-nearest neighbors classifier employs a K-value of about 5% of the size of the plurality of distinct first data sets. In some embodiments, the K-value of the random forest classifier is incremented by 1 if the k-value is an even number. In some embodiments, applying a machine learning algorithm to the third data set comprises applying a machine learning algorithm to a plurality of unique third data sets. In some embodiments, said classifier identifies said one or more third records associated with the specific phenotype with an accuracy of at least about 70%. In some embodiments, the method further comprises filtering the first records, the second records, or both. In some embodiments, the filtering comprises removing outliers, removing background noise, removing data without annotation data, normalizing, scaling, variance correcting, Weighted Gene Co-expression Network Analysis, enrichment analysis, dimensionality reduction, or any combination thereof. In some embodiments, the normalizing is performed by Robust Multi-Array Analysis (RMA), Guanine Cytosine Robust Multi-Array Analysis (GCRMA), Linear Models for Microarray Data, variance stabilizing transformation (VST), normal-exponential quantile correction (NEQC), or any combination thereof. In some embodiments, the variance correction comprises employing a local empirical Bayesian shrinkage, adjusting the p-values for multiple hypothesis testing using the Benjamini-Hochberg correction, and removing all data with a false discovery rate of less than 0.2. In some embodiments, the Weighted Gene Co-expression Network Analysis comprises calculating a topology matrix, clustering the data based on the topology matrix, and correlating module eigenvalues for traits on a linear scale by Pearson correlation, for nonparametric traits by Spearman correlation, and for dichotomous traits by point-biserial correlation or t-test.

In another aspect, the present disclosure provides a method for identifying a disease state or a susceptibility thereof of a subject, comprising: (a) using an assay to process a biological sample derived from the subject to generate a quantitative measure of each of a plurality of disease-associated genomic loci; (b) processing the dataset to identify the disease state or the susceptibility thereof of the subject; and (c) electronically outputting a report indicative of the disease state or the susceptibility thereof of the subject.

In some embodiments, the plurality of quantitative measures comprises gene expression measurements. In some embodiments, the disease state comprises an active COVID-19 condition or an inactive COVID-19 condition.

In another aspect, the present disclosure provides a computer-implemented method for assessing a disease state or condition of a subject, comprising: (a) receiving a dataset of a biological sample of the subject; (b) selecting one or more data analysis tools, wherein the one or more data analysis tools comprise an analysis tool selected from the group consisting of: a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, a Gene Set Variation Analysis (GSVA) tool (e.g., P-Scope), and a combination thereof; (c) processing the dataset using the one or more data analysis tools to generate a data signature of the biological sample of the subject; and (d) based at least in part on the data signature generated in (c), assessing the disease state or condition of the subject.

In some embodiments, the dataset comprises gene expression measurements. In some embodiments, the disease state comprises an active COVID-19 condition or an inactive COVID-19 condition.

In some embodiments, the dataset comprises mRNA gene expression or transcriptome data, DNA genomic data, proteomic data, metabolomic data, or a combination thereof. In some embodiments, the biological sample is selected from the group consisting of: a whole blood (WB) sample, a PBMC sample, a tissue sample, and a cell sample. In some embodiments, assessing the condition of the subject comprises identifying a disease or disorder of the subject.

In some embodiments, the method further comprises identifying a disease or disorder of the subject at a sensitivity or specificity of at least about 70%. In some embodiments, the method further comprises determining a likelihood of the identification of the disease or disorder of the subject. In some embodiments, the method further comprises providing a therapeutic intervention for the disease or disorder of the subject. In some embodiments, the method further comprises monitoring the disease or disorder of the subject, wherein the monitoring comprises assessing the disease or disorder of the subject at a plurality of time points, wherein the assessing is based at least on the disease or disorder identified at each of the plurality of time points.

In some embodiments, selecting the one or more data analysis tools comprises receiving a user selection of the one or more data analysis tools. In some embodiments, selecting the one or more data analysis tools is automatically performed by the computer without receiving a user selection of the one or more data analysis tools.

In another aspect, the present disclosure provides a computer system for assessing a disease state or condition of a subject, comprising: a database that is configured to store a dataset of a biological sample of the subject; and one or more computer processors operatively coupled to the database, wherein the one or more computer processors are individually or collectively programmed to: (i) select one or more data analysis tools, wherein the one or more data analysis tools comprise an analysis tool selected from the group consisting of: a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, a Gene Set Variation Analysis (GSVA) tool (e.g., P-Scope), and a combination thereof; (ii) process the dataset using the one or more data analysis tools to generate a data signature of the biological sample of the subject; and (iii) based at least in part on the data signature generated in (ii), assess the disease state or condition of the subject.

In some embodiments, the dataset comprises gene expression measurements. In some embodiments, the disease state comprises an active COVID-19 condition or an inactive COVID-19 condition.

In another aspect, the present disclosure provides a non-transitory computer-readable medium comprising machine-executable code that, upon execution by one or more computer processors, implements a method for assessing a disease state or condition of a subject, the method comprising: (a) receiving a dataset of a biological sample of the subject; (b) selecting one or more data analysis tools, wherein the one or more data analysis tools comprise an analysis tool selected from the group consisting of: a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, a Gene Set Variation Analysis (GSVA) tool (e.g., P-Scope), and a combination thereof (c) processing the dataset using the one or more data analysis tools to generate a data signature of the biological sample of the subject; and (d) based at least in part on the data signature generated in (c), assessing the disease state or condition of the subject.

In some embodiments, the dataset comprises gene expression measurements. In some embodiments, the disease state comprises an active COVID-19 condition or an inactive COVID-19 condition.

In any embodiment described herein, the one or more data analysis tools can be a plurality of data analysis tools each independently selected from a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, a Gene Set Variation Analysis (GSVA) tool (e.g., P-Scope), and a combination thereof.

In another aspect, the present disclosure provides a method for determining a COVID-19 disease state of a subject, comprising: (a) assaying a biological sample obtained or derived from the subject to produce a data set comprising gene expression measurements of the biological sample at each of a plurality of COVID-19 disease-associated genomic loci, wherein the plurality of COVID-19 disease-associated genomic loci comprises at least a portion of a gene selected from the group of genes listed in Table 6 and Tables 7A-7C; (b) computer processing the data set to determine the COVID-19 disease state of the subject; and (c) electronically outputting a report indicative of the COVID-19 disease state of the subject.

In some embodiments, the plurality of COVID-19 disease-associated genomic loci comprises at least a portion of 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150, 155, 160, 165, 170, 175, 180, 185, 190, 195, 200, 205, 210, 215, 220, 225, 230, 235, 240, 245, 250, 255, 260, 265, 270, 275, 280, 285, 290, 295, 300, 350, 400, 450, 500, 550, 600, 650, 700, 750, 800, 850, 900, 950, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000, 2100, 2200, 2300, 2400, 2500, 2600, 2700, 2800, 2900, 3000, 3100, 3200, 3300, 3400, 3500, 3600, 3700, 3800, 3900, 4000, 4100, 4200, 4300, 4400, 4500, 4600, 4700, 4800, 4900, 5000, 5100, 5200, 5300, 5400, 5500, 5600, 5700, 5800, 5900, or 6000 genes selected from the group of genes listed in Table 6 and Tables 7A-7C.

In some embodiments, the method further comprises determining the COVID-19 disease state of the subject with an accuracy of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the method further comprises determining the COVID-19 disease state of the subject with a sensitivity of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the method further comprises determining the COVID-19 disease state of the subject with a specificity of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the method further comprises determining the COVID-19 disease state of the subject with a positive predictive value of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the method further comprises determining the COVID-19 disease state of the subject with a negative predictive value of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the method further comprises determining the COVID-19 disease state of the subject with an Area-Under-Curve (AUC) of at least about 0.50, at least about 0.55, at least about 0.60, at least about 0.65, at least about 0.70, at least about 0.75, at least about 0.80, at least about 0.85, at least about 0.90, at least about 0.91, at least about 0.92, at least about 0.93, at least about 0.94, at least about 0.95, at least about 0.96, at least about 0.97, at least about 0.98, at least about 0.99, or more than about 0.99.

In some embodiments, the subject has received a diagnosis of the COVID-19 disease. In some embodiments, the subject is suspected of having the COVID-19 disease. In some embodiments, the subject is at elevated risk of having the COVID-19 disease or having severe complications from the COVID-19 disease. In some embodiments, the subject is asymptomatic for the COVID-19 disease. In some embodiments, the method further comprises administering a treatment to the subject based at least in part on the determined COVID-19 disease state. In some embodiments, the treatment is configured to treat the COVID-19 disease state of the subject. In some embodiments, the treatment is configured to reduce a severity of the COVID-19 disease state of the subject. In some embodiments, the treatment is configured to reduce a risk of having the COVID-19 disease. In some embodiments, the treatment comprises a drug. In some embodiments, the drug is selected from the group listed in Tables 8A-8B.

In some embodiments, (b) comprises using a trained machine learning classifier to analyze the data set to determine the COVID-19 disease state of the subject. In some embodiments, the trained machine learning classifier is trained using gene expression data obtained by a data analysis tool selected from the group consisting of: a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, and a Gene Set Variation Analysis (GSVA) tool. In some embodiments, the trained machine learning classifier is selected from the group consisting of a linear regression, a logistic regression, a Ridge regression, a Lasso regression, an elastic net (EN) regression, a support vector machine (SVM), a gradient boosted machine (GBM), a k nearest neighbors (kNN), a generalized linear model (GLM), a naïve Bayes (NB) classifier, a neural network, a Random Forest (RF), a deep learning algorithm, and a combination thereof.

In some embodiments, (b) comprises comparing the data set to a reference data set. In some embodiments, the reference data set comprises gene expression measurements of reference biological samples at each of the plurality of COVID-19 disease-associated genomic loci. In some embodiments, the reference biological samples comprise a first plurality of biological samples obtained or derived from subjects having the COVID-19 disease and a second plurality of biological samples obtained or derived from subjects not having the COVID-19 disease.

In some embodiments, the biological sample is selected from the group consisting of: a blood sample, isolated peripheral blood mononuclear cells (PBMCs), a biopsy sample, and any derivative thereof.

In some embodiments, the method further comprises determining a likelihood of the determined COVID-19 disease state.

In some embodiments, the method further comprises monitoring the COVID-19 disease state of the subject, wherein the monitoring comprises assessing the COVID-19 disease state of the subject at a plurality of time points.

In some embodiments, a difference in the assessment of the COVID-19 disease state of the subject among the plurality of time points is indicative of one or more clinical indications selected from the group consisting of: (i) a diagnosis of the COVID-19 disease state of the subject, (ii) a prognosis of the COVID-19 disease state of the subject, and (iii) an efficacy or non-efficacy of a course of treatment for treating the COVID-19 disease state of the subject.

In another aspect, the present disclosure provides a computer system for determining a COVID-19 disease state of a subject, comprising: a database that is configured to store a dataset comprising gene expression data, wherein the gene expression data is obtained by assaying a biological sample obtained or derived from the subject to produce gene expression measurements of the biological sample at each of a plurality of COVID-19 disease-associated genomic loci, wherein the plurality of COVID-19 disease-associated genomic loci comprises at least a portion of a gene selected from the group of genes listed in Table 6 and Tables 7A-7C; and one or more computer processors operatively coupled to the database, wherein the one or more computer processors are individually or collectively programmed to: (i) computer process the data set to determine the COVID-19 disease state of the subject; (ii) electronically output a report indicative of the COVID-19 disease state of the subject.

In some embodiments, the one or more computer processors are individually or collectively programmed to further determine the COVID-19 disease state of the subject with an accuracy of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the one or more computer processors are individually or collectively programmed to further determine the COVID-19 disease state of the subject with a sensitivity of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the one or more computer processors are individually or collectively programmed to further determine the COVID-19 disease state of the subject with a specificity of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the one or more computer processors are individually or collectively programmed to further determine the COVID-19 disease state of the subject with a positive predictive value of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the one or more computer processors are individually or collectively programmed to further determine the COVID-19 disease state of the subject with a negative predictive value of at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or more than about 99%.

In some embodiments, the one or more computer processors are individually or collectively programmed to further determine the COVID-19 disease state of the subject with an Area-Under-Curve (AUC) of at least about 0.50, at least about 0.55, at least about 0.60, at least about 0.65, at least about 0.70, at least about 0.75, at least about 0.80, at least about 0.85, at least about 0.90, at least about 0.91, at least about 0.92, at least about 0.93, at least about 0.94, at least about 0.95, at least about 0.96, at least about 0.97, at least about 0.98, at least about 0.99, or more than about 0.99.

In some embodiments, the subject has received a diagnosis of the COVID-19 disease. In some embodiments, the subject is suspected of having the COVID-19 disease. In some embodiments, the subject is at elevated risk of having the COVID-19 disease or having severe complications from the COVID-19 disease. In some embodiments, the subject is asymptomatic for the COVID-19 disease. In some embodiments, the one or more computer processors are individually or collectively programmed to further direct a treatment to be administered to the subject based at least in part on the determined COVID-19 disease state. In some embodiments, the treatment is configured to treat the COVID-19 disease state of the subject. In some embodiments, the treatment is configured to reduce a severity of the COVID-19 disease state of the subject. In some embodiments, the treatment is configured to reduce a risk of having the COVID-19 disease. In some embodiments, the treatment comprises a drug. In some embodiments, the drug is selected from the group listed in Tables 8A-8B.

In some embodiments, (i) comprises using a trained machine learning classifier to analyze the data set to determine the COVID-19 disease state of the subject. In some embodiments, the trained machine learning classifier is trained using gene expression data obtained by a data analysis tool selected from the group consisting of: a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, and a Gene Set Variation Analysis (GSVA) tool. In some embodiments, the trained machine learning classifier is selected from the group consisting of a linear regression, a logistic regression, a Ridge regression, a Lasso regression, an elastic net (EN) regression, a support vector machine (SVM), a gradient boosted machine (GBM), a k nearest neighbors (kNN), a generalized linear model (GLM), a naïve Bayes (NB) classifier, a neural network, a Random Forest (RF), a deep learning algorithm, and a combination thereof.

In some embodiments, (i) comprises comparing the data set to a reference data set. In some embodiments, the reference data set comprises gene expression measurements of reference biological samples at each of the plurality of COVID-19 disease-associated genomic loci. In some embodiments, the reference biological samples comprise a first plurality of biological samples obtained or derived from subjects having the COVID-19 disease and a second plurality of biological samples obtained or derived from subjects not having the COVID-19 disease.

In some embodiments, the biological sample is selected from the group consisting of: a blood sample, isolated peripheral blood mononuclear cells (PBMCs), a biopsy sample, and any derivative thereof.

In some embodiments, the one or more computer processors are individually or collectively programmed to further determine a likelihood of the determined COVID-19 disease state.

In some embodiments, the one or more computer processors are individually or collectively programmed to further monitor the COVID-19 disease state of the subject, wherein the monitoring comprises assessing the COVID-19 disease state of the subject at a plurality of time points.

In another aspect, the present disclosure provides a non-transitory computer readable medium comprising machine-executable code that, upon execution by one or more computer processors, implements a method for determining a COVID-19 disease state of a subject, the method comprising: (a) assaying a biological sample obtained or derived from the subject to produce a data set comprising gene expression measurements of the biological sample at each of a plurality of COVID-19 disease-associated genomic loci, wherein the plurality of COVID-19 disease-associated genomic loci comprises at least a portion of a gene selected from the group of genes listed in Table 6 and Tables 7A-7C; (b) computer processing the data set to determine the COVID-19 disease state of the subject; and (c) electronically outputting a report indicative of the COVID-19 disease state of the subject.

In some embodiments, the biological sample is selected from the group consisting of: a blood sample, isolated peripheral blood mononuclear cells (PBMCs), a biopsy sample, and any derivative thereof.

In some embodiments, the method further comprises determining a likelihood of the determined COVID-19 disease state.

Another aspect of the present disclosure provides a non-transitory computer-readable medium comprising machine executable code that, upon execution by one or more computer processors, implements any of the methods above or elsewhere herein.

Another aspect of the present disclosure provides a system comprising one or more computer processors and computer memory coupled thereto. The computer memory comprises machine executable code that, upon execution by the one or more computer processors, implements any of the methods above or elsewhere herein.

Additional aspects and advantages of the present disclosure will become readily apparent to those skilled in this art from the following detailed description, wherein only illustrative embodiments of the present disclosure are shown and described. As will be realized, the present disclosure is capable of other and different embodiments, and its several details are capable of modifications in various obvious respects, all without departing from the disclosure. Accordingly, the drawings and description are to be regarded as illustrative in nature, and not as restrictive.

BRIEF DESCRIPTION OF THE DRAWINGS

The patent application file contains at least one drawing executed in color. Copies of this patent application publication with color drawing(s) will be provided by the Office upon request and payment of the necessary fee.

The novel features of the disclosure are set forth with particularity in the appended claims. A better understanding of the features and advantages of the present disclosure will be obtained by reference to the following detailed description that sets forth illustrative embodiments, in which the principles of the disclosure are utilized, and the accompanying drawings of which:

FIG. 1A shows transcriptional changes in the progression of the pathologic response to SARS-CoV2 traced through three compartments (blood, lung, and airway) from activation and mobilization of immune cells in the blood, to infiltration into the lung tissue and airway of infected patients.

FIGS. 1B-1D show differences in inflammatory pathways and immune cell types enriched in COVID-19 patients as compared to healthy controls as well those that were differentially enriched between the blood, lung, and airway compartments, including increased inflammatory pathway signatures (FIG. 1B), decreased lymphoid cell signatures (FIG. 1C), and increased myeloid cell signatures (FIG. 1D) in COVID-19 patients.

FIGS. 2A-2F show differential expression of specific genes of interest (FIGS. 2A-2B); GSVA enrichment of non-hematopoietic cell type gene signatures including fibroblasts, Type I and Type II alveolar cells, ciliated lung cells, club cells, and a general lung tissue cell signature (FIGS. 2C-2E); and increased expression of the viral entry genes ACE2 and TMPRSS2, which are typically expressed on lung epithelium (ref), in the airway of SARS-CoV2-infected patients (FIG. 2F).

FIGS. 3A-3F show that PBMC cluster 8 was dominated by an inflammatory monocyte population defined by C2, C5, CXCL10, CCR2 and multiple interferon-stimulated genes, whereas cluster 3 contained hallmarks of alternatively activated (M2) macrophages and/or myeloid-derived suppressor cells (MDSCs), including CD33, CD36, CD93 and ITGAM (FIG. 3A; similar to the blood, lung-derived monocyte/myeloid genes segregated into clusters associated with common myeloid-lineage cell functions, such as chemotaxis and pattern recognition, as well as multiple subpopulations (FIG. 3E);

FIGS. 4A-4D show GSVA evaluation of both monocyte cell surface and monocyte secreted gene expression confirmed heterogeneous cell surface markers in the BAL, and increased chemokine secretion in the lung (FIG. 4A); Each cluster was evaluated in its respective tissue sample and control by GSVA (FIG. 4B); comparison of the co-expressed genes between each tissue myeloid population shows that many of the increased genes in each tissue are shared (FIG. 4C); and significant overlap, as determined by Fisher's Exact Test, in many populations (FIG. 4D).

FIGS. 5A-5E show myeloid cell population in the PBMCs was found to be highly glycolytic, whereas there was no significant change to metabolism detected in the lung, and the population in the BAL was reliant on OXPHOS (FIG. 5A); although myeloid cell signatures were associated with the NLRP3 inflammasome in the PBMCs and lungs, this association was not found in the BAL (FIG. 5B); the classical complement cascade was significantly correlated with the increased myeloid cells in both PBMCs and BAL, whereas the alternative complement cascade was significantly correlated with the myeloid cells in the lung (FIG. 5C); the myeloid cells in the PBMCs were also significantly correlated with the cell cycle, but this may be more evident of plasma cells in the blood (FIG. 5D); additionally, the lung and BAL myeloid populations were negatively correlated with apoptosis (FIG. 5E).

FIGS. 6A-6B show results from pathway analysis on DEGs from each of the peripheral blood, lung, and airway compartments using IPA canonical signaling pathway and upstream regulator analysis functions, including that interferon signaling, the inflammasome, and other components of antiviral, innate immunity were reflected by the disease state gene expression profile compared to healthy controls (FIG. 6A); and that upstream regulators predicted to mediate responses to the virus in each compartment indicated uniform involvement of proinflammatory cytokines with type I interferon regulation dominant in the diseased lung (FIG. 6B).

FIG. 7 shows that by comparing DE results from multiple compartments (the blood, lung, and airway) in COVID-19 patients, we have developed a model of the systemic pathogenic response to SARS-CoV2 infection.

FIGS. 8A-8C show previously defined gene modules characterizing immune and inflammatory cells and processes.

FIGS. 9A-9B show increased expression of Type I interferon genes (IFNA4, IFNA6, IFNA10) and significant enrichment of the Type I and Type II IGS specifically in the lung tissue, but not in the blood or airway of COVID-19 patients.

FIGS. 10A-10C show GSVA enrichment of non-hematopoietic cell type gene signatures including fibroblasts, Type I and Type II alveolar cells, ciliated lung cells, club cells, and a general lung tissue cell signature.

FIGS. 11A-11D show that peripheral blood exhibited profoundly suppressed T cells determined by the downregulation of T cell activation markers CD28, LCK and ITK (FIG. 11A); metabolic function in the lung was varied, however, upregulated genes segregated with glycolysis, potentially reflecting cellular activation (cluster 18), whereas OXPHOS was predominantly downregulated along with other nuclear processes (transcription and mRNA processing) (FIG. 11B); similar to the PBMC compartment, T cells were decreased in the airway (FIGS. 11A and 11C); non-hematopoietic cell signatures in the BAL were similar in content to those derived from in vitro COVID19-infected lung epithelium primary cell lines (NHBE) REF (FIG. 11D);

FIGS. 12A-12F show upregulation of FCN1 (cluster 15), SELL (cluster 14) and S100A8/A9 (cluster 4) which comprise an inflammatory monocyte signature (G1 population) derived from the BAL fluid of COVID patients recently described by Liao et al. (FIG. 12A); the G1 and G2 population genes, characterized by predominately interferon-stimulated genes, were increased in the lung (FIG. 12B); conversely, the “novel intermediate macrophage” population (G2) characterized by inflammatory mediators and chemokines such as CCL2, CCL3 and CCL4, was increased in the BAL, but not the PBMCs (FIG. 12C); additionally, per patient analyses confirmed the presence of the “pro-fibrotic, SPP1+” macrophage (G3) and “lung alveolar macrophage” populations (G4) in the BAL, although there also may be some evidence of these populations in the lung (FIGS. 12D-12E); evidence of recently described alveolar macrophages (AMs; G4 population) specifically in the airway (Liao et al., 2020), although these markers were distributed among multiple clusters, including FABP4 and PPARG in cluster 17, SPP1 and MRC1 in cluster 10, and MARCO and TFRC in clusters 34 and 7, respectively (FIG. 12E); and comparison of this population with additional previously defined myeloid populations demonstrated significant overlap with IFN-activated macrophages, CX3CR1+ lining macrophages (arthritis model) and an alveolar macrophage phenotype (FIG. 12F).

FIGS. 13A-13C show that DE interrogation of all possible myeloid cell-specific genes demonstrated further heterogeneity in expression of markers, such as CD14, CD300C, and OSCAR between compartments.

FIG. 14 shows that for each gene, a Pearson correlation coefficient was calculated with every other myeloid cell gene for both the samples and controls in each tissue compartment; and the resultant correlation coefficient matrices were then hierarchically clustered into two clusters based upon co-expression.

FIGS. 15A-15E show results from evaluating metabolism in each compartment using GSVA, including that the TCA cycle was significantly increased in PBMCs, whereas OXPHOS is significantly increased in the BAL (FIGS. 15C-15D), and that additionally, pro-cell cycle genes were increased in PBMCs and pro-apoptosis genes were decreased.

FIG. 16 shows a computer system 1601 that is programmed or otherwise configured to, for example, perform methods of the disclosure.

FIG. 17 shows conserved and differential enrichment of immune cells and pathways in blood, lung, and airway of SARS-CoV2-infected patients.

FIGS. 18A-18C show elevated IFN expression in the lung tissue of COVID-19 patients. FIG. 18A: Normalized log 2 fold change RNA-seq expression values for IFN-associated genes from blood, lung, and airway of individual COVID-19 patients. The dotted line represents the expression of each gene in healthy individuals (for blood and lung) or PBMCs from COVID-19 patients (airway). FIG. 18B: Individual sample gene expression from the blood, lung, and airway was analyzed by GSVA for enrichment of IFN-related gene signatures. FIG. 18C: Normalized log 2 fold change RNA-seq expression values for anti-viral genes as in (section a). Generated using GraphPad Prism v8.4.2 (www.graphpad.com). #p<0.2, ##p<0.1, *p<0.05, **p<0.01, ***p<0.001, ****p<0.0001

FIGS. 19A-19D show that viral entry gene expression correlates with enhanced expression of inflammatory mediators in SARS-CoV2-infected lungs. FIGS. 19A-19B: Normalized log 2 fold change RNA-seq expression values for chemokines and chemokine receptors (section a) and IL-1 family members (FIG. 19B) from blood, lung, and airway of COVID-19 patients as in FIG. 18A. FIG. 19C: Individual sample gene expression from the blood, lung, and airway was analyzed by GSVA for enrichment of various lung tissue cell categories. FIG. 19D: Normalized log 2 fold change RNA-seq expression values for viral entry genes as in FIGS. 19A-19B. Generated using GraphPad Prism v8.4.2 (www.graphpad.com). #p<0.2, ##p<0.1, *p<0.05, **p<0.01, ***p<0.001, ****p<0.0001

FIGS. 20A-20F show that PPI analysis identifies different myeloid cell subsets and metabolic pathways in blood, lung, and airway of COVID-19 patients.

FIGS. 21A-21F show that different co-expression-derived myeloid populations are found in blood, lung, and airway of COVID-19 patients.

FIG. 22 shows an analysis of biological activities of myeloid subpopulations.

FIGS. 23A-23B show a pathway analysis of SARS-CoV-2 blood, lung, and airway.

FIG. 24 shows a graphical model of COVID-19 pathogenesis.

FIGS. 25A-25D show that metaclusters identify differentially expressed cell populations and functional gene clusters in SARS-CoV2 infected tissues and cell lines.

FIGS. 26A-26F shows an evaluation of macrophage gene signatures in myeloid-derived clusters from COVID-affected blood, lung and BAL fluid.

FIG. 27 shows heterogeneous expression of monocyte/myeloid cell genes in different CoV2 tissue compartments as compared to control.

FIG. 28 shows an analysis of biological activities of myeloid subpopulations.

FIGS. 29A-29E show a pathway analysis of SARS-CoV-2 lung tissue. FIG. 29A: Remaining significant upstream regulators operative in SARS-CoV-2 lung tissue predicted by IPA upstream regulator analysis. Upstream regulator analysis was also conducted on DEGs from each individual COVID-19 lung compared to healthy controls due to observed heterogeneity. FIG. 29B: significant results displayed for Lung1-CoV2 vs. Lung-CTL. FIG. 29C: significant results displayed for Lung2-CoV2 vs. Lung-CTL. Chemical reagents, chemical toxicants, and non-mammalian endogenous chemicals were culled from results. The boxes with the dotted outline separate small molecules/drugs/compounds that were predicted as upstream regulators from pathway molecules and complexes. FIGS. 29D-29E: IPA canonical signaling pathway analysis was conducted on individual COVID-19 lung samples. Pathways and upstream regulators were considered significant by |Activation Z-Score|≥2 and overlap p-value <0.01.

DETAILED DESCRIPTION

Unless otherwise defined, all technical terms used herein have the same meaning as commonly understood by one of ordinary skill in the art to which this disclosure belongs.

Certain Terms

As used herein, the singular forms “a,” “an,” and “the” include plural references unless the context clearly dictates otherwise. Any reference to “or” herein is intended to encompass “and/or” unless otherwise stated.

As used herein, the term “about” refers to an amount that is near the stated amount by 10%, 5%, or 1%, including increments therein.

As used herein, the phrases “at least one”, “one or more”, and “and/or” are open-ended expressions that are both conjunctive and disjunctive in operation. For example, each of the expressions “at least one of A, B and C”, “at least one of A, B, or C”, “one or more of A, B, and C”, “one or more of A, B, or C” and “A, B, and/or C” means A alone, B alone, C alone, A and B together, A and C together, B and C together, or A, B and C together.

As used herein, the term “subject” refers to an entity or a medium that has testable or detectable genetic information. A subject can be a person, individual, or patient. A subject can be a vertebrate, such as, for example, a mammal. Non-limiting examples of mammals include humans, simians, farm animals, sport animals, rodents, and pets. The subject may be displaying a symptom(s) indicative of a health or physiological state or condition of the subject, such as a disease or disorder of the subject. As an alternative, the subject can be asymptomatic with respect to such health or physiological state or condition.

As used herein, the term “sample,” generally refers to a biological sample obtained from or derived from one or more subjects. Biological samples may be processed or fractionated before further analysis. Biological samples may include a whole blood (WB) sample, a PBMC sample, a tissue sample, a purified cell sample, or derivatives thereof. In some embodiments, a whole blood sample may be purified to obtain the purified cell sample. The term “derived from” used herein refers to an origin or source, and may include naturally occurring, recombinant, unpurified or purified molecules.

To obtain a blood sample, various techniques may be used, e.g., a syringe or other vacuum suction device. A blood sample can be optionally pre-treated or processed prior to use. A sample, such as a blood sample, may be analyzed under any of the methods and systems herein within 4 weeks, 2 weeks, 1 week, 6 days, 5 days, 4 days, 3 days, 2 days, 1 day, 12 hr, 6 hr, 3 hr, 2 hr, or 1 hr from the time the sample is obtained, or longer if frozen. When obtaining a sample from a subject (e.g., blood sample), the amount can vary depending upon subject size and the condition being screened. In some embodiments, at least 10 mL, 5 mL, 1 mL, 0.5 mL, 250, 200, 150, 100, 50, 40, 30, 20, 10, 9, 8, 7, 6, 5, 4, 3, 2, or 1 μL of a sample is obtained. In some embodiments, 1-50, 2-40, 3-30, or 4-20 μL of sample is obtained. In some embodiments, more than 5, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95 or 100 μL of a sample is obtained.

As used herein the term “diagnose” or “diagnosis” of a status or outcome includes predicting or diagnosing the status or outcome, determining predisposition to a status or outcome, monitoring treatment of patient, diagnosing a therapeutic response of a patient, and prognosis of status or outcome, progression, and response to particular treatment.

The sample may be taken before and/or after treatment of a subject with a disease or disorder. Samples may be obtained from a subject during a treatment or a treatment regime. Multiple samples may be obtained from a subject to monitor the effects of the treatment over time. The sample may be taken from a subject known or suspected of having a disease or disorder for which a definitive positive or negative diagnosis is not available via clinical tests. The sample may be taken from a subject suspected of having a disease or disorder. The sample may be taken from a subject experiencing unexplained symptoms, such as fatigue, nausea, weight loss, aches and pains, weakness, or bleeding. The sample may be taken from a subject having explained symptoms. The sample may be taken from a subject at risk of developing a disease or disorder due to factors such as familial history, age, hypertension or pre-hypertension, diabetes or pre-diabetes, overweight or obesity, environmental exposure, lifestyle risk factors (e.g., smoking, alcohol consumption, or drug use), or presence of other risk factors.

In some embodiments, a sample can be taken at a first time point and assayed, and then another sample can be taken at a subsequent time point and assayed. Such methods can be used, for example, for longitudinal monitoring purposes to track the development or progression of a disease. In some embodiments, the progression of a disease can be tracked before treatment, after treatment, or during the course of treatment, to determine the treatment's effectiveness. For example, a method as described herein can be performed on a subject prior to, and after, treatment with a disease state or condition therapy to measure the disease's progression or regression in response to the disease state or condition therapy.

After obtaining a sample from the subject, the sample may be processed to generate datasets indicative of a disease or disorder of the subject. For example, a presence, absence, or quantitative assessment of nucleic acid molecules of the sample at a panel of disease state or condition-associated or interferon-associated genomic loci or may be indicative of a disease state or condition of the subject. Processing the sample obtained from the subject may comprise (i) subjecting the sample to conditions that are sufficient to isolate, enrich, or extract a plurality of nucleic acid molecules, and (ii) assaying the plurality of nucleic acid molecules to generate the dataset (e.g., microarray data, nucleic acid sequences, or quantitative polymerase chain reaction (qPCR) data). Methods of assaying may include any assay known in the art or described in the literature, for example, a microarray assay, a sequencing assay (e.g., DNA sequencing, RNA sequencing, or RNA-Seq), or a quantitative polymerase chain reaction (qPCR) assay.

In some embodiments, a plurality of nucleic acid molecules is extracted from the sample and subjected to sequencing to generate a plurality of sequencing reads. The nucleic acid molecules may comprise ribonucleic acid (RNA) or deoxyribonucleic acid (DNA). The extraction method may extract all RNA or DNA molecules from a sample. Alternatively, the extraction method may selectively extract a portion of RNA or DNA molecules from a sample. Extracted RNA molecules from a sample may be converted to cDNA molecules by reverse transcription (RT).

The sample may be processed without any nucleic acid extraction. For example, the disease or disorder may be identified or monitored in the subject by using probes configured to selectively enrich nucleic acid (e.g., RNA or DNA) molecules corresponding to a panel of disease state or condition-associated or interferon-associated genomic loci. The probes may be nucleic acid primers. The probes may have sequence complementarity with nucleic acid sequences from one or more of the panel of disease state or condition-associated or interferon-associated genomic loci. The panel of disease state or condition-associated or interferon-associated genomic loci may comprise at least 2, at least 3, at least 4, at least 5, at least 6, at least 7, at least 8, at least 9, at least 10, at least 11, at least 12, at least 13, at least 14, at least 15, at least 16, at least 17, at least 18, at least 19, at least 20, at least about 25, at least about 30, at least about 35, at least about 40, at least about 45, at least about 50, at least about 55, at least about 60, at least about 65, at least about 70, at least about 75, at least about 80, at least about 85, at least about 90, at least about 95, at least about 100, or more disease state or condition-associated or interferon-associated genomic loci.

The probes may be nucleic acid molecules (e.g., RNA or DNA) having sequence complementarity with nucleic acid sequences (e.g., RNA or DNA) of one or more genomic loci (e.g., disease state or condition-associated or interferon-associated genomic loci). These nucleic acid molecules may be primers or enrichment sequences. The assaying of the sample using probes that are selective for the one or more genomic loci (e.g., disease state or condition-associated or interferon-associated genomic loci) may comprise use of array hybridization, polymerase chain reaction (PCR), or nucleic acid sequencing (e.g., RNA sequencing or DNA sequencing, such as RNA-Seq).

The assay readouts may be quantified at one or more genomic loci (e.g., disease state or condition-associated or interferon-associated genomic loci) to generate the data indicative of the disease or disorder. For example, quantification of array hybridization or polymerase chain reaction (PCR) corresponding to a plurality of genomic loci (e.g., disease state or condition-associated or interferon-associated genomic loci) may generate data indicative of the disease or disorder. Assay readouts may comprise quantitative PCR (qPCR) values, digital PCR (dPCR) values, digital droplet PCR (ddPCR) values, fluorescence values, etc., or normalized values thereof.

Big Data Analysis Tools and Drug/Target Scoring Algorithms

The present disclosure provides systems and methods to perform data analysis using drug or target scoring algorithms and/or big data analysis tools. In various aspects, such drug or target scoring algorithms and/or big data analysis tools may be used to perform analysis of data sets including, for example, mRNA gene expression or transcriptome data, DNA genomic data, proteomic data, metabolomic data, other types of “-omic” data, or a combination thereof. Systems and methods of the present disclosure may use one or more of the following: a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, and a Gene Set Variation Analysis (GSVA) tool (e.g., P-Scope).

A method to assess a condition (e.g., COVID-19) of a subject may comprise using one or more data analysis tools and/or algorithms. The method may comprise receiving a dataset of a biological sample of a subject. Next, the method may comprise selecting one or more data analysis tools and/or algorithms. For example, the data analysis tools and/or algorithms may comprise a BIG-C™ big data analysis tool, an I-Scope™ big data analysis tool, a T-Scope™ big data analysis tool, a CellScan big data analysis tool, an MS (Molecular Signature) Scoring™ analysis tool, a Gene Set Variation Analysis (GSVA) tool (e.g., P-Scope), or a combination thereof. Next, the method may comprise processing the dataset using selected data analysis tools and/or algorithms to generate a data signature of the biological sample of the subject. Next, the method may comprise assessing the condition of the subject based on the data signature.

The BIG-C (Biologically Informed Gene Clustering) tool may be configured to sort large groups of genes into a set of functional groups (e.g., 53 functional groups). The functional groups are created utilizing publicly available information from online tools and databases including UniProtKB/Swiss-Prot, GO Terms, KEGG pathways, NCBI PubMed, and the Interactome. The functional groups may include one or more of: Active RNA, Anti-apoptosis, anti-proliferation, autophagy, chromatin remodeling, cytoplasm and biochemistry, cytoskeleton, DNA repair, endocytosis, endoplasmic reticulum, endosome and vesicles, fatty acid biosynthesis, cell surface, transcription, glycolysis and gluconeogenesis, golgi, immune cell surface, immune secreted, immune signaling, integrin pathway, interferon stimulated genes, intracellular signaling, lysosome, melanosome, MHC class I, MHC class II, microRNA processing, microRNA, mitochondrial transcription, mitochondria, mitochondria oxidative phosphorylation, mitochondrial TCA cycle, mRNA processing, mRNA splicing, non-coding RNA, nuclear receptor, nucleus and nucleolus, palmitoylation, pattern recognition receptors, peroxisomes, pro-apoptosis, pro-cell cycle, proteasome, pseudogenes, RAS superfamily, reactive oxygen species protection, secreted and extracellular matrix, transcription factors, transporters, transposon control, ubiquitylation and sumoylation, unfolded protein and stress, and unknown. Enrichment scores for each group are calculated based on an overlap p value to determine the functional groups over or under-expressed in the gene expression dataset. The BIG-C may be configured such that each gene is sorted into only one of the 53 functional groups, allowing for a quick and relatively simple understanding of types of genes enriched and co-expressed in a big dataset.

The I-Scope™ tool may be configured to identify immune infiltrates. Hematopoietic cells are unique in that they move throughout the body patrolling for threats to the host, and may infiltrate tissue sites not normally home to immune cells. I-Scope™ may be configured to identify hematopoietic cells through an iterative search of more than 17,000 genes identified in more than 50 microarray datasets. From this search, 1226 candidate genes are identified and researched for restriction in hematopoietic cells as determined by the HPA, GTEx and FANTOMS datasets (e.g., available at proteinatlas.org). 926 genes meet the criteria for being mainly restricted to hematopoietic lineages (brain, reproductive organ exclusions were permitted). These genes are researched for immune cell specific expression in 27 hematopoietic sub-categories: alpha beta T cell, T cell, regulatory T Cell, activated T cell, anergic T cell, gamma delta T cells, CD8 T, NK/NKT cell, NK cell, T & B cells, B cells, germinal center B cells, B cell and plasmacytoid dendritic cell, T &B & myeloid, B & myeloid, T & myeloid, MHC Class II expressing cell, monocyte, dendritic cell, plasmacytoid dendritic cells, myeloid cell, plasma cell, erythrocyte, neutrophil, low density granulocyte, granulocyte, and platelet. Transcripts are entered into I-Scope™ and the number of transcripts in each category determined. Odd's ratios are calculated with confidence intervals using the Fisher's exact test in R.

The T-Scope™ tool may be configured to help identify types of non-hematopoietic cells in gene expression datasets. T-Scope™ may be configured by downloading approximately 10,000 tissue enriched and 8,000 cell line enriched genes from the human protein atlas along with their tissue or cell line designation (e.g., available at proteinatlas.org). Genes found in more than four tissues are eliminated. Housekeeping genes described in the gene expression study by She et al. are also removed (e.g., as described by She et al., “Definition, conservation and epigenetics of housekeeping and tissue-enriched genes,” BMC Genomics 2009, 10:269, which is incorporated herein by reference in its entirety). This list is further curated by removing genes differentially expressed in 34 hematopoietic cell gene expression datasets and adding kidney specific genes from datasets downloaded from the GEO repository and processed by Ampel BioSolutions. The resulting categories of genes represent genes enriched in the following 42 tissue/cell specific categories: adrenal gland, breast, cartilage, cerebral cortex, uterine cervix, chondrocyte, colon, duodenum, endometrium, epididymis, esophagus fallopian tube, esophagus, fibroblast, heart muscle, keratinocyte, kidney, liver, lung, melanocyte, ovary pancreas, parathyroid gland, placenta, podocyte, prostrate, rectum, salivary gland, seminal vesicle, skeletal muscle, skin, small intestine, smooth muscle, stomach, synoviocyte, testis, kidney loop of henle, kidney proximal tubule, kidney distal tubule, and kidney collecting duct.

The CellScan tool may be a combination of I-Scope™ and T-Scope™, and may be configured to analyze tissues with suspected immune infiltrations that should also have tissue specific genes. CellScan may potentially be more stringent than either I-Scope™ or T-Scope™ because it may be used to distinguish resident tissue cells from non-resident hematopoietic cells.

The MS (Molecular Signature) Scoring tool may be configured to assess specific pathways in a disease state. Information on genes that encode for proteins that participate in a specific signaling pathway, and whether the gene product promotes or inhibits the pathway, are compiled and curated through literature mining. Curated pathways presented by the company include CD40-CD40ligand, IL-6, IL-12/23, TNF, IL-17, IL-21, S1P1, IL-13 and PDE4, but this method may be used for any known signaling pathway with available data. To determine if a signaling pathway is over or under-expressed in a microarray dataset, the gene list for each signaling pathway may be queried against the limma differentially expressed genes from a disease state compared to healthy controls, and the differentially expressed genes in the signaling pathway may be identified for each set. The fold changes for genes that promoted the pathway may be added together and the fold changes for genes that inhibited the pathway may be subtracted from the score. This total score may be normalized based on the number of genes that could be detected on the specific microarray platform used for the experiment. Activation scores of −100 to +100 may be determined using this method with negative scores indicating an inhibition of the specific pathway in the disease state and positive scores indicating an up-regulation of a specific pathway in the disease state. The Fischer's exact test may be performed to determine if there was sufficient overlap of genes between the experimental differentially expressed genes and the genes in the signaling pathway.

Gene Set Variation Analysis (GSVA) may be performed (for example, as described in Catalina et al. (2019, Communications Biology, “Gene expression analysis delineates the potential roles of multiple interferons in systemic lupus erythematosus”, which is incorporated herein by reference in its entirety) to determine enrichment of signaling pathways in individual patient samples. Gene set variation analysis may be performed using an open source software package for the coding language R available at the R Bioconductor (bioconductor.org), e.g., as described by Hanzelman et al., (“GSVA: gene set variation analysis for microarray and RNA-Seq data,” BMC Bioinformatics, 2013, which is incorporated herein by reference in its entirety). The modules of genes to interrogate the datasets may be developed. Modules of genes determined to represent a specific signaling pathway or process may be identified (e.g., using publicly available datasets). For example, the IFNB1 signaling pathway is taken from a publicly available gene expression dataset of peripheral blood cells treated with IFNB1 in vitro. Genes co-expressed in this dataset (genes either all increased or decreased compared to control treated peripheral blood) are used to create modules of genes representing the IFNB1 signaling pathway, and GSVA is used to determine the enrichment of this set of genes and hence the IFNB1 signaling pathway in individual patient and control samples.

BIG-C™ Big Data Analysis Tool

BIG-C® is a fast and efficient cloud-based tool to functionally categorize gene products. With coverage of over 80% of the genome, BIG-C® leverages publicly available databases such as UniProtKB/Swiss-Prot, GO terms, KEGG pathways, NCBI PubMed and Interactome to place genes into 53 functional categories. The sorting into only one of 53 functional groups allows for a quick and relatively simple understanding of types of genes enriched and co-expressed in a big dataset. This assists in deriving further insights from genes expressed for a given disease state in human or pre-clinical mouse models.

BIG-C® can be used to functionally categorize immunological genes that are not covered in cancer databases such as GO and KEGG (e.g., as described by Grammer et al. 2016, “Drug repositioning in SLE: crowd-sourcing, literature-mining and Big Data analysis,” Lupus, 25 (10), 1150-1170, which is incorporated herein by reference in its entirety). Using a knowledge base of over 5000 patients with systemic lupus erythematosus (SLE), over 16432 genes may be each placed into one of 53 BIG-C® functional categories, and statistical analysis may be performed to identify enriched categories. BIG-C® categories may be cross-examined with the GO and KEGG terms to obtain additional information and insights.

A sample BIG-C® workflow may comprise the following steps. First, SLE genomic datasets are derived from whole blood, peripheral blood mononuclear cells, affected tissues, and purified immune cells. Second, datasets are analyzed using DE analysis or Weighted Gene Coexpression Network Analysis (WGCNA). Third, expressed genes are annotated using publicly available databases (e.g., UniProtKB/Swiss-Prot database, Human Immunodeficiencies database, Mouse MGI database, Entrez Molecular Sequence database, PubMed, and the Human Tissue Atlas). Fourth, signatures are cross-referenced with purified single-cell microarray datasets and RNAseq experiments. Fifth, BIG-C® is leveraged to separate the individual annotated genes into one of 53 functional categories shown in Table 1 (e.g., as described by Labonte et al. 2018, “Identification of alterations in macrophage activation associated with disease activity in systemic lupus erythematosus,” PloS one, 13 (12), e0208132, which is incorporated herein by reference in its entirety). Sixth, chi-squared analysis is used to determine enriched categories of interest from overlap p-values. Seventh, enriched categories are cross-examined with GO and KEGG terms to derive key insights for further analysis.

TABLE 1

BIG-C Categories

Immune

Cell
General Cell
Immune
Intracellular
MHC Class
MHC Class
Secreted

Pat. Recog.

Surface
Surface
Signaling
Signaling
I
II
Immune
Secreted ECM
Receptors

Interferon
PRO-Cell
Anti-Cell
PRO
Anti
Unfold Prot.
Proteasome
Autophagy
Ubiquity lation

Gene Sig
Cycle
Cycle
Apoptosis
Apoptosis
Stress

General
Transcript.
Nuc
Chromatin
DNA
mRNA
mRNA
MicroRNA
Cytoskeleton

Transcript.
Factors
Horm.
Remodel
Repair
Translation
Splicing
Processing

Receptors

Integrin
RAS
WNT
Lysosome
Endocytosis
Endosome
Endoplas.
Oxidative
TCA Cycle

Pathway
Superfamily
Signaling

& Vesicles
Retic.
Phosphor.

Mito. DNA
Mito
FA
Transporters
Cytoplasm
Peroxisomes
ROS
Nuclear &
Active RNA

toRNA

Biosynth

Biochem

Protection
Nucleolus

MicroRNA
Melanosome
Unknown
Pseudogenes
Transposon
Golgi
Glycolysis
Palmitoylation

Control

I-Scope™ Big Data Analysis Tool

I-Scope™ may be a tool configured for cross-examining the presence and activity of varying types of immune cell infiltrates with observed gene expression patterns. It may take annotated gene expression data and analyze it for hematopoietic cell lineage. I-Scope™ can be used downstream of the BIG-C® (Biologically Informed Gene-Clustering) tool in that it helps to provide even more insight into the nature of the genes being expressed after categorization.

I-Scope™ addresses the need to understand the involvement of specific cells for a given disease state. While it is helpful to understand the relative up-regulation and down-regulation at the gene expression level, it is even more informative to understand specifically in which cells this is occurring. I-Scope™ may be configured to identify hematopoietic cells through an iterative search of more than 17,000 genes identified in more than 50 microarray datasets (e.g., as described by Hubbard et al., “Analysis of Lupus Synovitis Gene Expression Reveals Dysregulation of Pathogenic Pathways Activated within Infiltrating Immune Cells,” Arthritis Rheumatol, 2018; 70 (suppl 10), which is incorporated herein by reference in its entirety). I-Scope™ may function by restricting the analysis to genes of hematopoietic cell heritage and allow for cross-checking against purified single-cell experiments or datasets. The cross-check confirms and categorizes specific transcript signatures to the 28 hematopoietic cell sub-categories shown in Table 2, ultimately allowing for cellular activity analysis across multiple samples and disease states. When combined with BIG-C® categories, the cellular activity can be correlated to specific functions within a given cell type.

TABLE 2

I-Scope™ Cell Sub-Categories

Monos/
Plasma

Macs
Cells
T-Cells
B-Cells
Dendritic
T&B Cells
CD8 T

Myeloid
Tact
LDG
Hematopoietic
Neutrophil
Ag
Granulocytes

Cells

Presentation

Platelets
pDC
T, B, Mono
Langerhans
Bact
Mono and
Erythrocytes

B

Mast Cell
T reg
Gd T
T anergic
FDC
CD4T
T/NK/NKT

Cells

A sample I-Scope™ workflow may comprise the following steps. First, candidate genes are identified from datasets (associated with a disease state or condition) potentially associated with immune cell expression. Second, using HPA, GTEx, and FANTOMS datasets, expression signatures associated with hematopoietic cell lineage are identified. Third, signatures are cross-referenced with purified single-cell microarray datasets and RNAseq experiments. Fourth, transcripts are categorized into 28 hematopoietic cell sub-categories and assess cellular expression across different samples and disease states. Odd's ratios are calculated with confidence intervals using the Fisher's exact test in R. An I-Scope™ signature analysis for a given sample may lead to the I-Scope™ signature analysis across multiple samples and disease states.

T-Scope™ Big Data Analysis Tool

The T-Scope™ tool may be configured for cross-examining gene expression signatures of a given sample with a database of non-hematopoietic cell types (e.g., as described by Hubbard et al., “Analysis of Gene Expression from Systemic Lupus Erythematosus Synovium Reveals Unique Pathogenic Mechanisms [Abstract], Annual Meeting of the American College of Rheumatology; June 2019; Chicago, Ill., which is incorporated herein by reference in its entirety). T-Scope™ may comprise a database of 704 transcripts allocated to 45 independent categories. Transcripts detected in the sample are matched to one of the cellular categories within the T-Scope™ tool to derive further insights on tissue cell activity. T-Scope™ can be used downstream of the BIG-C® (Biologically Informed Gene-Clustering) tool to understand which tissue cell types are present. In conjunction with I-Scope™ (which provides information related to immune cells), T-Scope™ can be performed to provide a complete view of all possible cell activity in a given sample.

T-Scope™ addresses the need to understand the involvement of specific tissue cells for a given disease state. While it is helpful to understand the relative up-regulation and down-regulation at the gene expression level, it is even more informative to understand specifically in which cells this is occurring. T-Scope™ may be configured by downloading a set of approximately 10,000 tissue enriched and 8,000 cell line enriched genes from the Human Protein Atlas along with their tissue or cell line designation. Genes differentially expressed in hematopoietic cell datasets are removed and kidney specific genes are added from the GEO repository. T-Scope™ may function by restricting the analysis to genes of known tissue cell heritage and allow for cross-checking against purified single-cell experiments or datasets. The cross-check confirms and categorizes specific transcript signatures to the 45 tissue cell sub-categories (as shown in Table 3), ultimately allowing for cellular activity analysis across multiple samples and disease states. When combined with BIG-C® categories, the cellular activity can be correlated to specific functions within a given tissue cell type.

TABLE 3

T-Scope™ 45 Categories of Tissue Cells

Adipose
Adrenal

Cerebral
Cervix,

Tissue
Gland
Breast
Cartilage
Cortex
Uterine
Chondrocyte
Colon
Dendritic

Duodenum
Endometrium
Endothelial
Epididymis
Erythrocytes
Esophagus
Fallopian
Fibroblast
Gallbaldder

Tube

Heart Muscle
Keratinocyte
Keratinocyte
Kidney
Kidney
Kidney Loop
Kidney
Kidney
Kidney

Skin

Distal

Proximal
Tubule Duct
Tubule

Tubules

Tubules

Langherhans
Liver
Lung
Melanocyte
Podocyte
Prostate
Rectum
Salivary
Seminal

Gland
Vesicle

Skeletal
Skin
Small
Smooth
Stomach
Synoviocyte
Testis
Thyroid
Urinary

Muscle

Intenstine
Muscle

Gland
Bladder

A sample T-Scope™ workflow may comprise the following steps. First, candidate genes are identified from differential expression datasets (associated with a disease state or condition) potentially associated with tissue cell expression. Second, using publicly available databases, expression signatures associated with potential tissue cell activity are identified. Third, signatures are cross-referenced with microarray, scRNAseq or RNAseq experiments. Fourth, transcripts are categorized into 45 tissue cell sub-categories and cellular expression is assessed across different samples and disease states. Results may be obtained using T-Scope™ in combination with I-Scope™ for identification of cells post-DE-analysis.

Cell Scan Big Data Analysis Tool

A cloud-based genomic platform may be configured to provide users with access to CellScan™, which comprises a suite of tools for the identification, analysis, and prioritization of targets for drug development and/or repositioning. This platform is powered by a database containing the genomic information gathered from 5000+ autoimmune patients. The cloud-based genomic platform may leverage results from RNAseq and microarray experiments in conjunction with clinical information, such as medication and lab tests, to provide previously undiscovered insights.

CellScan™ may go beyond typical ‘omics analysis by performing one or more of the following: functionally categorizing genes and their products (e.g., using BIG-C®); deconvolving gene expression data to identify unique immunological cell types from blood or biopsy samples (e.g., using I-Scope™); identifying tissue specific cell from biopsy samples (e.g., using T-Scope™); identifying receptor-ligand interactions and subsequent signaling pathways (e.g., using MS-Scoring™); ranking genes and their products for targeting by drugs and miRNA mimetics; and prioritizing FDA-approved drugs and drugs-in-development for treatment in patients or pre-clinical models.

CellScan™ applications may include one or more of: Biomarker Discovery, Disease Mechanisms, Drug Mechanism of Action, Drug Mechanism of Toxicity, and Target Identification and Validation. Experimental approaches supported by CellScan™ may include one or more of: lncRNA, Metabolomics, MicroArray, miRNA, mRNA, qPCR, Proteomics, and RNAseq.

Data analysis and interpretation with CellScan™ may build on comprehensive, manually curated content of a knowledge base. Powerful, quick, and efficient tools may be used to perform deep analysis of NGS and miRNA data to identify gene function, immunological and tissue cell type, pathways, and target/drug appropriate for a specific disease state.

CellScan™ features may be configured to optimize or maximize the impact of information that surfaces in an analysis so that interpretation of a dataset is comprehensive and elucidates actionable insights. These features may include one or more of: NGS RNAseq data analysis, biomarker scoring, and prioritizing targets and drugs for human clinical trials and/or pre-clinical models. The NGS RNAseq data analysis may comprise interrogating RNA and miRNA data for function, cell-type (immunological or tissue) and pathways. The biomarker scoring may comprise using a knowledge base and gene expression data to assess and prioritize biomarkers associated with a target disease or phenotype. The target/drug prioritization may comprise leveraging objective scoring of targets and drugs based on parameters such as scientific rationale, evidence in mouse/human cells, prior clinical data, overall drug properties, and the risk of adverse events.

The knowledge base may be a repository created from millions of individual pieces of information gathered about genes, cells, tissues, drugs, and diseases, and manually reviewed for accuracy and includes rich contextual details and links to original publications. The knowledge base may enable access to relevant and substantiated knowledge from primary literature as well as public and private databases for comprehensive interpretation of NGS/RNAseq data elucidating function/pathways and prioritize targets/drugs for given disease states. Table 4 shows an example list of reference databases for the content in CellScan™, with both human and mouse species-specific identifiers supported.

TABLE 4

Reference Databases for Content in CellScan ™

Affymetrix
Entrez Gene
HPA
scRNAseq

Agilent
FANTOM5
Illumina
STITCH

BrainArray
GenBank
Interactome
Mouse

Genome

Database

(MGD)

CAS Registry
Gene Symbol-human
KEGG
UCSC

Number
(Hugo/HGNC)

(hg 18)

Clinicaltrials.gov
Gene Symbol-mouse
LINCS/CLUE
UCSC

(Entrez Gene)

(hg 19)

CodeLink
GNF Tissue
Mosby's Drug
Unigene

Expression Body
Consult

Atlas

DrugBank
GO terms
NCBI PubMed
Uniprot/

Swiss-Prot

Accession

Drugs@FDA
Goodman & Gilman's
NCI-60 Cell Line

Pharmacological Basis
Expression Atlas

of Therapeutics

Ensembl
GTEx
Refseq

MS (Molecular Signature) Scoring™ Analysis Tool

MS-Scoring™ may be configured to identify receptor-ligand interactions and predict ongoing signaling pathways. In addition, MS-Scoring™ may be used to validate molecular pathways as potential targets for new or repurposed drug therapies. The specificity of next-generation drug therapies requires a way to understand the potential of a given therapy to act on the intended biochemical target. Moreover, a potential application of this is the repositioning of drug therapies that may have the correct biochemical targeting to address multiple clinical needs beyond the initial intended therapeutic value.

MS-Scoring™ may be specifically developed to address gaps in the QIAGEN IPA® (Ingenuity Pathway Analysis) tool that does not contain many immunologically relevant pathways. Similar to IPA®, MS-Scoring™ 1 may use log-fold change information to score the target and its signaling pathway to verify the viability of the targets. If the fold-change of the genes of a signaling pathway appears to be upregulated or inhibitors appear to be downregulated, MS-Scoring™ 1 may provide a score of +1. Conversely if the genes of a signaling pathway appear downregulated or the inhibitors upregulated, MS-Scoring™ 1 may provide a score of −1. A score of zero may be provided if no fold-change is observed. The scores may then be summed and normalized across the entire pathway to yield a final % score between −100 (inhibition) and +100 (up-regulation). Higher absolute magnitude scores, scores that are close to −100 or +100, may indicate a high potential for therapeutic targeting. The Fischer's exact test may be performed to determine if there is sufficient overlap of genes between the experimental differentially expressed genes and the genes in the signaling pathway.

A sample MS-Scoring™ 1 workflow may comprise the following steps. First, potential drugs and pathways are identified by LINCS (Library of Integrated Network-Based Cellular Signatures) as candidates for therapeutic intervention. Second, MS-Scoring™ 1 is used to evaluate individual transcript elements of the target pathway. Third, signatures are cross-referenced with purified single-cell microarray datasets and RNAseq experiments. Fourth, scores are compiled and normalized to provide an overall % score for the pathway and higher absolute magnitude scores indicate a higher potential for therapeutic targeting.

MS-Scoring™ 2 may utilize custom-defined gene modules that represent a signaling pathway or process and is particularly useful for gene expression datasets from microarray or RNAseq. The MS-Scoring™ 2 tool may be configured to take a deeper look at signaling pathways analyzed using the MS-Scoring™ 1. The tool may analyze raw gene expression data and assess enrichment by the Gene Set Variation Analysis (as described herein), which assigns an indexed score to the individual co-expressed pathways between −1 and +1 indicating levels of down-regulation and up-regulation respectively.

A sample MS-Scoring™ 2 workflow may comprise the following steps. First, a signaling pathway of interest is selected from the MS-Scoring™ 2 menu. Second, a raw gene expression data is inputted into the MS-Scoring™ 2 tool. Third, enrichment of signaling pathway (s) is assessed on a patient by patient basis. Fourth, the data can then be used to drive insight for the target signaling pathways in individual patient samples.

Gene Set Variation Analysis (GSVA)

Gene Set Variation Analysis (GSVA) algorithms may be performed (for example, as described in Catalina et al. (2019, Communications Biology, “Gene expression analysis delineates the potential roles of multiple interferons in systemic lupus erythematosus”, which is incorporated herein by reference in its entirety) to determine enrichment of signaling pathways in individual patient samples. Gene set variation analysis may be performed using an open source software package for the coding language R available at the R Bioconductor (bioconductor.org), e.g., as described by Hanzelman et al., (“GSVA: gene set variation analysis for microarray and RNA-Seq data,” BMC Bioinformatics, 2013, which is incorporated herein by reference in its entirety) and as described by [R Core Team (2020). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. www.R-project.org/], which is incorporated herein by reference in its entirety. The modules of genes to interrogate the datasets may be developed. Modules of genes determined to represent a specific signaling pathway or process may be identified (e.g., using publicly available datasets). For example, the IFNB1 signaling pathway is taken from a publicly available gene expression dataset of peripheral blood cells treated with IFNB1 in vitro. Genes co-expressed in this dataset (genes either all increased or decreased compared to control treated peripheral blood) are used to create modules of genes representing the IFNB1 signaling pathway, and GSVA is used to determine the enrichment of this set of genes and hence the IFNB1 signaling pathway in individual patient and control samples.

A GSVA-based data analysis tool may be developed for use in analyzing specific sets of gene pathways. The GSVA-based data analysis tool (e.g., P-Scope) may use a GSVA statistical test-based tool using different sets of genes to analyze certain pathways. Such sets of genes may include, for example, human genes, mouse genes, or a combination thereof.

Computer Systems

The present disclosure provides computer systems that are programmed to implement methods of the disclosure. FIG. 16 shows a computer system 1601 that is programmed or otherwise configured to, for example, perform methods of the disclosure.

The computer system 1601 can regulate various aspects of analysis, calculation, and generation of the present disclosure, such as, for example, performing methods of the disclosure. The computer system 1601 can be an electronic device of a user or a computer system that is remotely located with respect to the electronic device. The electronic device can be a mobile electronic device.

The computer system 1601 includes a central processing unit (CPU, also “processor” and “computer processor” herein) 1605, which can be a single core or multi core processor, or a plurality of processors for parallel processing. The computer system 1601 also includes memory or memory location 1610 (e.g., random-access memory, read-only memory, flash memory), electronic storage unit 1615 (e.g., hard disk), communication interface 1620 (e.g., network adapter) for communicating with one or more other systems, and peripheral devices 1625, such as cache, other memory, data storage and/or electronic display adapters. The memory 1610, storage unit 1615, interface 1620 and peripheral devices 1625 are in communication with the CPU 1605 through a communication bus (solid lines), such as a motherboard. The storage unit 1615 can be a data storage unit (or data repository) for storing data. The computer system 1601 can be operatively coupled to a computer network (“network”) 1630 with the aid of the communication interface 1620. The network 1630 can be the Internet, an internet and/or extranet, or an intranet and/or extranet that is in communication with the Internet.

The network 1630 in some cases is a telecommunication and/or data network. The network 1630 can include one or more computer servers, which can enable distributed computing, such as cloud computing. For example, one or more computer servers may enable cloud computing over the network 1630 (“the cloud”) to perform various aspects of analysis, calculation, and generation of the present disclosure, such as, for example, performing methods of the disclosure. Such cloud computing may be provided by cloud computing platforms such as, for example, Amazon Web Services (AWS), Microsoft Azure, Google Cloud Platform, and IBM cloud. The network 1630, in some cases with the aid of the computer system 1601, can implement a peer-to-peer network, which may enable devices coupled to the computer system 1601 to behave as a client or a server.

The CPU 1605 may comprise one or more computer processors and/or one or more graphics processing units (GPUs). The CPU 1605 can execute a sequence of machine-readable instructions, which can be embodied in a program or software. The instructions may be stored in a memory location, such as the memory 1610. The instructions can be directed to the CPU 1605, which can subsequently program or otherwise configure the CPU 1605 to implement methods of the present disclosure. Examples of operations performed by the CPU 1605 can include fetch, decode, execute, and writeback.

The CPU 1605 can be part of a circuit, such as an integrated circuit. One or more other components of the system 1601 can be included in the circuit. In some cases, the circuit is an application specific integrated circuit (ASIC).

The storage unit 1615 can store files, such as drivers, libraries and saved programs. The storage unit 1615 can store user data, e.g., user preferences and user programs. The computer system 1601 in some cases can include one or more additional data storage units that are external to the computer system 1601, such as located on a remote server that is in communication with the computer system 1601 through an intranet or the Internet.

The computer system 1601 can communicate with one or more remote computer systems through the network 1630. For instance, the computer system 1601 can communicate with a remote computer system of a user. Examples of remote computer systems include personal computers (e.g., portable PC), slate or tablet PC's (e.g., Apple® iPad, Samsung® Galaxy Tab), telephones, Smart phones (e.g., Apple® iPhone, Android-enabled device, Blackberry®), or personal digital assistants. The user can access the computer system 1601 via the network 1630.

Methods as described herein can be implemented by way of machine (e.g., computer processor) executable code stored on an electronic storage location of the computer system 1601, such as, for example, on the memory 1610 or electronic storage unit 1615. The machine executable or machine-readable code can be provided in the form of software. During use, the code can be executed by the processor 1605. In some cases, the code can be retrieved from the storage unit 1615 and stored on the memory 1610 for ready access by the processor 1605. In some situations, the electronic storage unit 1615 can be precluded, and machine-executable instructions are stored on memory 1610.

The code can be pre-compiled and configured for use with a machine having a processor adapted to execute the code, or can be compiled during runtime. The code can be supplied in a programming language that can be selected to enable the code to execute in a pre-compiled or as-compiled fashion.

Aspects of the systems and methods provided herein, such as the computer system 1601, can be embodied in programming. Various aspects of the technology may be thought of as “products” or “articles of manufacture” typically in the form of machine (or processor) executable code and/or associated data that is carried on or embodied in a type of machine-readable medium. Machine-executable code can be stored on an electronic storage unit, such as memory (e.g., read-only memory, random-access memory, flash memory) or a hard disk. “Storage” type media can include any or all of the tangible memory of the computers, processors or the like, or associated modules thereof, such as various semiconductor memories, tape drives, disk drives and the like, which may provide non-transitory storage at any time for the software programming. All or portions of the software may at times be communicated through the Internet or various other telecommunication networks. Such communications, for example, may enable loading of the software from one computer or processor into another, for example, from a management server or host computer into the computer platform of an application server. Thus, another type of media that may bear the software elements includes optical, electrical and electromagnetic waves, such as used across physical interfaces between local devices, through wired and optical landline networks and over various air-links. The physical elements that carry such waves, such as wired or wireless links, optical links or the like, also may be considered as media bearing the software. As used herein, unless restricted to non-transitory, tangible “storage” media, terms such as computer or machine “readable medium” refer to any medium that participates in providing instructions to a processor for execution.

Hence, a machine-readable medium, such as computer-executable code, may take many forms, including but not limited to, a tangible storage medium, a carrier wave medium or physical transmission medium. Non-volatile storage media include, for example, optical or magnetic disks, such as any of the storage devices in any computer(s) or the like, such as may be used to implement the databases, etc. shown in the drawings. Volatile storage media include dynamic memory, such as main memory of such a computer platform. Tangible transmission media include coaxial cables; copper wire and fiber optics, including the wires that comprise a bus within a computer system. Carrier-wave transmission media may take the form of electric or electromagnetic signals, or acoustic or light waves such as those generated during radio frequency (RF) and infrared (IR) data communications. Common forms of computer-readable media therefore include for example: a floppy disk, a flexible disk, hard disk, magnetic tape, any other magnetic medium, a CD-ROM, DVD or DVD-ROM, any other optical medium, punch cards paper tape, any other physical storage medium with patterns of holes, a RAM, a ROM, a PROM and EPROM, a FLASH-EPROM, any other memory chip or cartridge, a carrier wave transporting data or instructions, cables or links transporting such a carrier wave, or any other medium from which a computer may read programming code and/or data. Many of these forms of computer-readable media may be involved in carrying one or more sequences of one or more instructions to a processor for execution.

The computer system 1601 can include or be in communication with an electronic display 1635 that comprises a user interface (UI) 1640 for providing, for example, a visual display. Examples of UIs include, without limitation, a graphical user interface (GUI) and web-based user interface.

Methods and systems of the present disclosure can be implemented by way of one or more algorithms. An algorithm can be implemented by way of software upon execution by the central processing unit 1605. The algorithm can, for example, perform methods of the disclosure.

EXAMPLES

The following illustrative examples are representative of embodiments of the software applications, systems, and methods described herein and are not meant to be limiting in any way.

Example 1: Comprehensive Gene Expression Analysis Reveals Targetable Pathologic Processes in Blood, Lung, and Airway of COVID-19 Patients

Abstract

SARS-CoV2 is a previously uncharacterized coronavirus and causative agent of the COVID-19 pandemic. COVID-19 typically causes mild respiratory symptoms, but may escalate to acute respiratory distress syndrome (ARDs) with an increased risk of respiratory failure and death. However, the trajectory of disease progression and the status of affected tissues in COVID-19 patients has not been elucidated. We performed a comprehensive analysis of gene expression data from the blood, lung, and airway of COVID-19 patients to better understand the host response to SARS-CoV2 infection. Our results indicate that COVID-19 pathogenesis is driven by populations of myeloid-lineage cells with highly inflammatory but distinct transcriptional signatures, suggesting a progression in activation from the periphery to the lung tissue. In addition, through analysis of immune cells and inflammatory pathways enriched in each compartment, we have built a model of the systemic response to SARS-CoV2 and identified therapeutics targeting key upstream regulators of pathways contributing to COVID-19 pathogenesis.

Introduction

Coronaviruses (CoV) are a group of enveloped single positive stranded RNA viruses named for the spike proteins on their surface that resemble a crown (Fung and Liu, 2019). Seven coronaviruses have now been found to infect humans, causing mild to severe respiratory and intestinal illnesses including an estimated 15% of common colds (Cui et al., 2019; Greenberg, 2016). In the past two decades, three global pandemics have originated from coronaviruses capable of infecting the lower respiratory tract resulting in heightened pathogenicity and high mortality rates in humans. In 2002-2003, severe acute respiratory syndrome coronavirus (SARS-CoV) lead to greater than 8,000 cases with a mortality rate of nearly 10% (Drosten et al., 2003; Fung and Liu, 2019). Subsequently, Middle East respiratory syndrome coronavirus (MERS-CoV) emerged in 2012, leading to over 2,000 confirmed cases and a mortality rate of approximately 35% (Chafekar and Fielding, 2018; Fung and Liu, 2019). We are currently in the midst of a pandemic stemming from a new coronavirus strain, severe acute respiratory syndrome coronavirus 2 (SARS-CoV2), the causative agent of coronavirus disease 2019 (COVID-19). In the majority of cases, patients exhibit mild symptoms, whereas in more severe cases, patients may develop acute respiratory distress syndrome (ARDS), which leads to lung injury and death from respiratory failure (Chen et al., 2020a; Zhang et al., 2020).

SARS-CoV2 utilizes the SARS-CoV receptor, ACE2, in conjunction with the spike protein activator, TMPRSS2, to infect host cells (Hoffmann et al., 2020). Expression of ACE2 and TMPRSS2 has been detected in multiple tissues including lung epithelium and vascular endothelium, (Lovren et al., 2008; Sungnak et al., 2020) which are likely to be the first cells infected by the virus. However, at this time, there is still incomplete information available regarding the host response to SARS-CoV2 infection and the perturbations resulting in a severe outcome. Despite this, clues can be derived from our knowledge of the immune response to infection by other respiratory viruses, including SARS-CoV and MERS-CoV. After infection, viruses are typically detected by pattern recognition receptors (PRRs) such as the inflammasome sensor NLRP3, which signal the release of interferons and inflammatory cytokines including the IL-1 family, IL-6, and TNF which activate a local and systemic response to infection (Kelley et al., 2019; Lazear et al., 2019). This involves the recruitment, activation, and differentiation of innate and adaptive immune cells including neutrophils, inflammatory myeloid cells, CD8 T cells, and natural killer (NK) cells (Newton et al., 2016). Resolution of infection is largely dependent on the cytotoxic activity of CD8 T cells and NK cells, which enables clearance of virus-infected cells and thus acts to prevent further spread of the virus (Newton et al., 2016). Failure to clear virus-infected cells may facilitate a hyper-inflammatory state termed “cytokine storm”, macrophage activation syndrome (MAS), or haemophagocytic lymphohystocytosis (HLH) and ultimately damage to the infected lung (Crayne et al., 2019; McGonagle et al., 2020). Clearance of virus also coincides with development of neutralizing antibodies, although recent studies have suggested that 30% of subjects who clear SARS-CoV2 do not develop neutralizing antibodies (Tay et al.). Moreover, the role of the anti-SARS-CoV2 antibody is complex, in that in non-human primates, anti-viral antibody may exacerbate the lung pathology, a phenomenon also reported in older subjects infected with the virus (Wang et al., 2020).

The novelty of SARS-CoV2 and thus the lack of comprehensive knowledge regarding the progression of COVID-19 disease, has constrained our ability to develop effective treatments for infected patients. One means to obtain a comprehensive knowledge of the host response to SARS-CoV2 is to examine gene expression in relevant tissues. A limited number of studies have been reported and have suggested that the disease generally induces a dysfunctional immune response involving lymphopoenia, increased inflammatory cell recruitment to the lung, and an increase in local and systemic release of pro-inflammatory cytokines or “cytokine storm”, conditions which are exacerbated in more severe cases (Tay et al.). However, because of the small number of samples and limited analysis, a full picture of the biological state of SARS-CoV2-affected tissues has not emerged. To address this, we have assessed all of the available SARS-CoV2 gene expression datasets using a number of orthogonal bioinformatic tools to better understand the host response to SARS-CoV2 infection. As a result, we have identified immune cell types and inflammatory pathways critical for COVID-19 pathogenesis. Furthermore, we have characterized differences in transcriptional signatures between these compartments to develop a model for the systemic response to SARS-CoV2 infection and identified potential drugs to target harmful inflammatory mediators in COVID-19 patients.

Results

Gene Expression Analysis of Blood, Lung, and Airway of COVID-19 Patients

Gene expression reflects the current state of cellular activity of cells or organs and can be employed to delineate changes in cellular composition and/or function in a sample. A limited number of gene expression profiles are available from patients with COVID-19 and have yielded some insights into the pathogenic processes triggered by infection with SARS-CoV-2 (Blanco-Melo et al., 2020; Wei et al., 2020; Xiong et al., 2020). We reasoned that a more comprehensive analysis of all available gene sets from blood, lung and airway using a number of complementary orthogonal approaches might provide a more complete view of the nature of the COVID-19 inflammatory response and the potential points of intervention that might have therapeutic value. To characterize the pathologic response to SARS-CoV2 infection manifested in the peripheral blood and lung of COVID-19 patients, we analyzed RNA sequencing (RNA-seq) data from peripheral blood mononuclear cells (PBMCs) and postmortem lung tissue of COVID-19 patients and healthy controls as well as bronchoalveolar lavage (BAL) fluid of COVID-19 patients (Blanco-Melo et al., 2020; Xiong et al., 2020). We first determined changes in gene expression in the blood (PBMC-CTL vs PBMC-CoV2) and lung (Lung-CTL vs Lung-CoV2). Because no control BAL fluids were associated with the BAL-CoV2 samples, we compared BAL-CoV2 to PBMC-CoV2 from the same dataset to avoid effects related to batch and methodology. These results must be viewed with caution, understanding that the comparison can only show changes in gene expression profiles between different compartments. Despite that, important differences were observed. Overall, we found 4,277 differentially expressed genes (DEGs) in the blood (2,175 up and 2,102 down), 2,261 DE genes in the lung (711 up and 1550 down), and 9,183 DE genes in the airway (4,263 up and 4,920 down). From these comparisons, we traced transcriptional changes in the progression of the pathologic response to SARS-CoV2 through these three compartments from activation and mobilization of immune cells in the blood, to infiltration into the lung tissue and airway of infected patients (FIG. 1A).

Conserved and Differential Enrichment of Immune Cells and Pathways in Blood, Lung, and Airway of COVID-19 Patients

To interrogate pathologic pathways in the 3 compartments, we performed Gene Set Variation Analysis (GSVA) utilizing previously reported interferon response gene (IRG) modules (Catalina et al., 2019), gene modules of inflammatory pathways curated from online databases, and previously defined gene modules characterizing immune and inflammatory cells and processes (Cataline et al. unpublished manuscript) (FIG. 8). This analysis allowed us to identify differences in inflammatory pathways and immune cell types enriched in COVID-19 patients as compared to healthy controls as well those that were differentially enriched between the blood, lung, and airway compartments. Overall, our results revealed increased inflammatory pathway signatures (FIG. 1B), decreased lymphoid cell signatures (FIG. 1C), and increased myeloid cell signatures (FIG. 1D) in COVID-19 patients, a pattern that is consistent with earlier studies (Blanco-Melo et al., 2020; Wen et al., 2020; Xiong et al., 2020). Interestingly, we found important differences in the gene expression profiles between the blood, lung, and airway compartments.

In the blood, inflammatory pathways including the classical and lectin-induced complement pathways and the NLRP3 inflammasome were enriched (FIG. 1B). T cells were significantly decreased in the blood of 2 out of 3 COVID-19 patients and cytotoxic CD8 T cells and NK cells were significantly decreased in all patients. In contrast, we found enrichment of signatures for the CD40 activated pathway and plasma cells only in the blood and not the lung or airway of infected individuals (FIG. 1C). Myeloid populations, which include monocytes and granulocytes, were not enriched in the blood of COVID-19 patients compared to controls (FIG. 1D). However, we did observe a significant increase in the monocyte-specific gene signature as well as polarized M1/M2 macrophages (FIG. 1D).

Although, there is conflicting data on the presence of an Interferon Gene Signature (IGS) and whether SARS-CoV2 infection induces a robust IFN response, (Blanco-Melo et al., 2020) we observed increased expression of Type I interferon genes (IFNA4, IFNA6, IFNA10) and significant enrichment of the Type I and Type II IGS specifically in the lung tissue, but not in the blood or airway of COVID-19 patients (FIG. 7; FIG. 1B). We also observed enrichment of other potentially pathologic processes in the lung that were shared with the other compartments, including the classical and alternative complement pathways and NLRP3 inflammasome signatures (FIG. 1B). In the lung tissue, overall T cell signatures were modestly, but not significantly enriched, and activated or cytotoxic cells were not enriched compared to healthy controls suggesting that some T cells were able to enter the infected lung tissue, but were not activated and did not include cells with cytotoxic potential (FIG. 1C). In addition, all myeloid, monocyte, and macrophage populations were enriched as well as neutrophils and granulocytes, consistent with a contribution of multiple myeloid cells types contributing to COVID-19 lung pathology (FIG. 1D; FIG. 8B) (Xu et al., 2020).

In the airway, the classical and alternative complement pathways but not the NLRP3 inflammasome signature were enriched in COVID-19 patients as compared to COVID PBMCs (FIG. 1B). We also observed even greater deficiencies in T cells and cytotoxic cells as compared to the peripheral blood (FIG. 1C). Similar to PBMCs from COVID-19 patients, the general myeloid cell gene signature was not enriched in the airway. In contrast, only the M1/M2 macrophage signatures and not the monocyte signature was significantly enriched compared to the blood (FIG. 1D). As a whole, these results highlight the heterogeneity of immune cell types and resulting inflammatory processes in the peripheral blood, lung tissue, and airways of COVID-19 patients.

Increased Expression of Inflammatory Mediators in the Lungs of COVID-19 Patients

To examine the nature of the inflammatory response in the tissue compartments in greater detail, we examined differential expression of specific genes of interest (FIGS. 2A&B). In the blood, we noted increased expression of the inflammatory chemokine CXCL10, which is induced by IFNγ and involved in the activation and chemotaxis of peripheral immune cells (Lindell et al., 2008). We also found increased expression of the chemokine receptor CCR2, which has been shown to be critical for immune cell recruitment in response to respiratory viral infection (FIG. 2A) (Teijaro, 2015). We found few differentially expressed cytokine genes in the blood, but did observe an increase in expression of the inflammatory IL-1 family member, IL18 (FIG. 2B). Expression of a number of chemokines including ligands for CCR2 were significantly increased in both the lung tissue and airway of COVID-19 patients, including CCL2, CCL3L1, CCL7, CCL8, and CXCL10 (FIG. 2A). Whereas the only IL-1 family cytokines significantly enriched in the lung were IL1A and IL1B, we did observe enrichment of the IL-1 cytokine gene signature by GSVA (FIG. 2B; FIG. 8B). In addition to increased expression of chemokine genes shared with the lung tissue (FIG. 2A), many more pro-inflammatory IL-1 family members including IL18, IL33, IL36B, and IL36G were significantly elevated in the airway and not the lung of COVID-19 patients (FIG. 2B).

Non-Hematopoietic Cells in the BAL Fluid May be Indicative of Viral-Induced Damage in the Lungs

To determine whether viral infection in the lungs and airway resulted in modification of resident tissue populations, we evaluated GSVA enrichment of non-hematopoietic cell type gene signatures including fibroblasts, Type I and Type II alveolar cells, ciliated lung cells, club cells, and a general lung tissue cell signature (FIGS. 2C-2E; FIG. 10). We found that these non-hematopoietic cell signatures were significantly enriched in the airway, but not the lung. Additionally, we only detected increased expression of the viral entry genes ACE2 and TMPRSS2, which are typically expressed on lung epithelium (ref), in the airway of SARS-CoV2-infected patients (FIG. 2F).

Protein-Protein Interaction Metaclusters Identify Myeloid Cells and Metabolic Pathways in Blood, Lung, and Airway of COVID-19 Patients

We next sought to utilize an unbiased, clustering approach to assess the relationship between immune cell types and the altered biological processes driving SARS-CoV2-mediated pathology within each tissue compartment. Protein-protein interaction (PPI) networks consisting of DE genes were simplified into metastructures defined by the number of genes in each cluster, the number of significant intracluster connections and the number of associations connecting members of different clusters to each other. Overall, upregulated protein networks from blood, lung, and airway of SARS-CoV2-infected patients identified numerous multifunctional clusters many of which included heterogeneous populations of monocyte and myeloid lineage cells. For example, PBMC cluster 8 was dominated by an inflammatory monocyte population defined by C2, C5, CXCL10, CCR2 and multiple interferon-stimulated genes, whereas cluster 3 contained hallmarks of alternatively activated (M2) macrophages and/or myeloid-derived suppressor cells (MDSCs), including CD33, CD36, CD93 and ITGAM (FIG. 3A). Smaller immune clusters were indicative of specific monocyte/myeloid functions, including inflammasome activation (cluster 54), DAMP activity (cluster 17), the classical complement cascade (cluster 34) and the response to Type II interferons (cluster 32). Myeloid heterogeneity was also reflected in the presence of multiple metabolic pathways, such as enhanced oxidative phosphorylation (OXPHOS) in clusters 1 and 4 linked to M2 macrophages, and glycolysis in clusters 7 and 13 used by inflammatory monocytes. Consistent with our GSVA results, peripheral blood exhibited profoundly suppressed T cells determined by the downregulation of T cell activation markers CD28, LCK and ITK (FIG. 11A).

Lung tissue was heavily inflamed exhibiting infiltration of monocyte/myeloid populations with additional infiltration of LDGs, granulocytes, T and B cells. Although distributed among multiple clusters, we observed upregulation of FCN1 (cluster 15), SELL (cluster 14) and S100A8/A9 (cluster 4) which comprise an inflammatory monocyte signature (G1 population) derived from the BAL fluid of COVID patients recently described by Liao et al. (Liao et al., 2020) (FIG. 12A). Metabolic function in the lung was varied, however, upregulated genes segregated with glycolysis, potentially reflecting cellular activation (cluster 18), whereas OXPHOS was predominantly downregulated along with other nuclear processes (transcription and mRNA processing) (FIG. 3B; FIG. 11B).

Finally, the airway was enriched in inflammatory monocytes, mitochondrial function and transcription. Multifunctional cluster 4 was dominated by immune-secreted molecules including numerous chemokine and cytokine receptor-ligand pairs indicative of elevated chemotactic activity, while smaller immune clusters were enriched in classical complement activation (cluster 34), type II interferon (cluster 26) and IL-1 responses (cluster 51). We also observed evidence of recently described alveolar macrophages (AMs; G4 population) specifically in the airway (Liao et al., 2020), although these markers were distributed among multiple clusters, including FABP4 and PPARG in cluster 17, SPP1 and MRC1 in cluster 10, and MARCO and TFRC in clusters 34 and 7, respectively (FIG. 3C, FIG. 12E). The airway was the only compartment with a prominent apoptosis signature located in cluster 47. Consistent with high levels of tissue damage originating from the lung, we observed numerous small clusters reflecting epithelial disruption and non-hematopoietic cell involvement, including clusters 5 and 13 containing multiple intermediate filament keratin genes and cell-cell adhesion claudin genes, respectively. Furthermore, non-hematopoietic cell signatures in the BAL were similar in content to those derived from in vitro COVID19-infected lung epithelium primary cell lines (NHBE) REF (FIG. 11D). Compromised lung function and deep tissue damage was also evident in clusters containing numerous surfactant genes (cluster 43), and the presence of several endothelial (VEGF, PDGFC and DLC1) and fibroblast (ASPN) markers. Similar to the PBMC compartment, T cells were decreased in the airway (FIGS. 11A and 11C).

Myeloid Cell-Derived Metaclusters Define Functional Myeloid Subpopulations within the Blood, Lung, and Airway of Covid-19 Patients

Given the large number of monocyte and myeloid enriched clusters, we next wanted to examine those clusters in greater detail to identify unique myeloid lineage and/or monocyte populations within each tissue compartment. In PBMCs, metaclusters derived from monocyte-enriched clusters revealed new gene modules that were representative of common macrophage function (chemotaxis, proteolysis, etc) as well as two independent monocyte/myeloid subpopulations (FIG. 3D). Cluster 6 contained numerous markers highly reminiscent of classically activated blood monocytes, including C1QA, C1QB, MARCO, TLR4, IRAK1 and was connected to inflammasome genes in cluster 13. Furthermore, clusters 6 and 13 exhibited significant overlap with the inflammatory G1 population defined by Liao et al (2020). In contrast, genes in cluster 1 suggest a second myeloid population characterized by expression of CD33, ITGAM, apoptotic cell clearance (CD93 and MERTK) and high proteolytic capacity. Interestingly, comparison of this population with additional previously defined myeloid populations demonstrated significant overlap with IFN-activated macrophages, CX3CR1+ lining macrophages (arthritis model) and an alveolar macrophage phenotype (FIG. 12F).

Similar to the blood, lung-derived monocyte/myeloid genes segregated into clusters associated with common myeloid-lineage cell functions, such as chemotaxis and pattern recognition, as well as multiple subpopulations (FIG. 3E). Cluster 3 interacted strongly with cluster 6 (interaction score 0.7), containing numerous C-type lectin domain family members involved in cell adhesion, chemotactic receptors (CD74), ligands (CCL8), and FCN1, a recently described marker for highly inflammatory monocytes (G1 population) (Liao et al., 2020). Cluster 6 strongly interacted with pro-migration/chemotaxis cluster 2, and together these clusters exhibited significant overlap with the Liao-defined G1 population, confirming the presence of an infiltrating inflammatory monocyte population in this compartment (FIG. 12F).

Examination of genes in cluster 4 and 7 reveals a potential second myeloid population characteristic of alveolar macrophages (AMs) defined by CSF2RB, which functions as the receptor for GM-CSF, a cytokine that regulates AM differentiation (Joshi et al., 2006; Newton et al., 2016; Suzuki et al., 2014). Interestingly, further characterization of this population indicates significant involvement of the coagulation system indicated by F5, FGG, FGL1, FGL1, SERPINA and SERPINE2.

BAL fluid was also potentially defined by 2 populations, including cluster 7 which had hallmarks of inflammatory/M1 monocytes (MARCO and multiple members of the complement cascade), and AMs in clusters 3 and 5 (FIG. 12F). Cluster 5 was highly enriched in genes related to transcription, but also contained numerous markers for AMs, including APOC1, FABP4 and PPARG and demonstrated significant overlap with the Liao G3 and G4 populations defining “pro-fibrotic” and “lung alveolar macrophages,” respectively (FIG. 12F) (Liao et al., 2020).

Co-Expression Further Delineates Differing Myeloid Gene Expression Between Subpopulations within the Blood, Lung, and Airway of COVID-19 Patients

Both GSVA and PPI networks elucidated the presence of increased myeloid cell populations in all SARS-CoV-2 affected tissues, and PPIs revealed the presence of tissue-specific subpopulations, defined by differing biologic functions. The overlap between many Liao et al. signature genes and the tissue-defined PPI clusters motivated us to further evaluate their enrichment in all tissue compartments. Consistent with PPI clusters, the inflammatory-monocyte like population (G1) was found to be increased in both PBMC and lung, but was significantly decreased in the BAL (FIG. 12A). The G1 and G2 population genes, characterized by predominately interferon-stimulated genes, were increased in the lung (FIG. 12B). Conversely, the “novel intermediate macrophage” population (G2) characterized by inflammatory mediators and chemokines such as CCL2, CCL3 and CCL4, was increased in the BAL, but not the PBMCs (FIG. 12C). Additionally, per patient analyses confirmed the presence of the “pro-fibrotic, SPP1+” macrophage (G3) and “lung alveolar macrophage” populations (G4) in the BAL, although there also may be some evidence of these populations in the lung (FIGS. 12D-12E).

Taken together, evaluation of PPIs and previously published COVID myeloid populations revealed nuances in the myeloid cell populations found among the tissue compartments. We wished to further classify these populations by their expression of traditional myeloid-specific genes including cell surface markers and chemokines. DE interrogation of all possible myeloid cell-specific genes demonstrated further heterogeneity in expression of markers, such as CD14, CD300C, and OSCAR between compartments (FIG. 13). GSVA evaluation of both monocyte cell surface and monocyte secreted gene expression confirmed heterogeneous cell surface markers in the BAL, and increased chemokine secretion in the lung (FIG. 4A). To expand upon the PPI framework, and evaluate how these myeloid-specific genes were expressed in relation to our discovered subpopulations, we utilized co-expression analysis. As such, we evaluated the co-expression of 195 monocyte and myeloid cell genes independently in each tissue compartment. For each gene, a Pearson correlation coefficient was calculated with every other myeloid cell gene for both the samples and controls in each tissue compartment (FIG. 14). The resultant correlation coefficient matrices were then hierarchically clustered into two clusters based upon co-expression (FIG. 14). Each cluster was evaluated in its respective tissue sample and control by GSVA (FIG. 4B). For each compartment, there was a population of genes that were highly co-expressed and altogether increased in each tissue (FIG. 4B). Comparison of the co-expressed genes between each tissue myeloid population shows that many of the increased genes in each tissue are shared (FIG. 4C). The majority of complement genes, including C1QA, C1QB, C1QC C2, C4BPA, and C6 were in included in the 40 genes co-expressed in the increased populations in each compartment. The common co-expressed genes in all tissues also included CCL2, CCL7, CCL8, CXCL10, CCL18, CXCL11, IL18, and TNF. Notably, some of the co-expressed genes unique to the increased COVID lung and BAL populations included CHI3L1, CXCL8, CXCR2, and IL1B, which may be reminiscent of alveolar macrophages. Conversely, these genes were uniquely decreased in the COVID PBMCs.

To characterize the function and nature of these myeloid populations, we again compared them with previously published myeloid signatures including those identified as alveolar macrophages (Reyfman et al., 2019), M1 and M2 populations (Martinez et al., 2006) (Adam's RnD source), and other signatures observed in murine models of inflammatory arthritis (Culemann et al., 2019). Furthermore, we evaluated the overlap between co-expression derived myeloid clusters and those identified using STRING/MCODE PPI in FIG. 3, as well as macrophages clusters recently evaluated in another cohort of COVID BAL fluid (Liao et al., 2020). We observed significant overlap, as determined by Fisher's Exact Test, in many populations (FIG. 4D).

Of the co-expression derived myeloid clusters increased in each tissue compartment, we observed a progression of classically activated, proinflammatory monocytes from the blood into the lung tissue and in some cases getting sloughed off into the airway, as observed by significant overlap with the PBMC myeloid cluster 6, Lung myeloid clusters 3 and 6, Liao et al.'s proinflammatory population (G1), and the CCR2+IL1B+ infiltrating population (FIG. 4D). Interestingly, we observed a similar trend with the CD33+ MDSC-like pathogenic population (PBMC Myeloid Cluster 1), although the overlap was not as significant as the classically activated, proinflammatory monocyte populations. Contrary to these patterns, we did also observe an M1 macrophage population in all three compartments that was most significantly enriched in the COVID BAL fluid (RnD M1). Upon further investigation into the specific overlapping M1 genes, this observed enrichment was primarily due to the presence of chemokines, proinflammatory cytokines, and activation marker CD80. Additionally, we identified alveolar macrophages in all compartments but primarily in the lung, characterized by inhibitory M2-like gene transcripts, alarmins, chemokines, Fc fragments of the IgG receptor, and CD11c. Despite identification of myeloid populations with features of multiple previously described subtypes, the increased myeloid co-expression derived populations were predominantly proinflammatory and were characterized by pathogenic, activated phenotypes.

Linear Regression Confirms Functional Associations with Myeloid Subpopulations

To confirm the function of these myeloid populations in the pathology of SARS-CoV-2, we performed linear regression analyses between myeloid GSVA scores and functional or signaling pathways. Earlier DE functional enrichment and MCODE/STRING analyses suggested a predominant role for metabolism, particularly glycolysis and the TCA cycle, in PBMCs, as well as OXPHOS in all three tissue compartments. We therefore evaluated metabolism in each compartment using GSVA (FIG. 15). We found that the TCA cycle was significantly increased in PBMCs, whereas OXPHOS is significantly increased in the BAL (FIGS. 15C-15D). Additionally, pro-cell cycle genes were increased in PBMCs and pro-apoptosis genes were decreased. We thus evaluated apoptosis and cell cycle on an individual patient basis in each of the compartments using GSVA (FIG. 16). Furthermore, both TNF signaling and complement proteins have been noted as relevant to COVID pathology, and these were evaluated by GSVA as well (FIG. 1).

Linear regression analyses between GSVA scores for the myeloid cell populations and metabolic, functional, and signaling pathways in each compartment further demonstrated differences among the myeloid cell populations. The myeloid cell population in the PBMCs was found to be highly glycolytic, whereas there was no significant change to metabolism detected in the lung, and the population in the BAL was reliant on OXPHOS (FIG. 5A). Although myeloid cell signatures were associated with the NLRP3 inflammasome in the PBMCs and lungs, this association was not found in the BAL (FIG. 5B). The classical complement cascade was significantly correlated with the increased myeloid cells in both PBMCs and BAL, whereas the alternative complement cascade was significantly correlated with the myeloid cells in the lung (FIG. 5C). The myeloid cells in the PBMCs were also significantly correlated with the cell cycle, but this may be more evident of plasma cells in the blood (FIG. 5D). Additionally, the lung and BAL myeloid populations were negatively correlated with apoptosis (FIG. 5E). As a whole, our analyses reveal the heterogeneity of myeloid cell populations in the blood, lung, and airway of COVID-19 patients in their metabolic and overall inflammatory status, which has critical implications for the role (s) these populations play in COVID-19 pathogenesis.

IPA Confirms Metabolic Activity and Viral, Innate Immunity as Targetable Pathways in COVID-19 Patients

To further inform the biology of SARS-CoV-2-infected patients, we conducted pathway analysis on DEGs from each of the peripheral blood, lung, and airway compartments using IPA canonical signaling pathway and upstream regulator analysis functions (FIG. 6). Gene expression fold changes were used to inform statistical overlap with known signaling pathways and molecules upstream of DEGs in SARS-CoV-2. In general, interferon signaling, the inflammasome, and other components of antiviral, innate immunity were reflected by the disease state gene expression profile compared to healthy controls (FIG. 6A). In addition, metabolic pathways including oxidative phosphorylation and glycolysis were significantly activated in SARS-CoV-2 PBMCS compared to controls. Though no differences were found between the PBMCs and BALF in these particular pathways, interestingly, xenobiotic metabolism was predicted to be significantly more activated in the airway indicating a cellular defense response.

Upstream regulators predicted to mediate responses to the virus in each compartment indicated uniform involvement of proinflammatory cytokines with type I interferon regulation dominant in the diseased lung (FIG. 6B). Notable upstream regulators of SARS-CoV-2 peripheral blood included IFNA, IFNG, multiple growth factors and ligands, HIF1A, CSF1 and CSF2; however, when compared to the BALF, upstream regulators of the peripheral blood were more indicative of the presence of lymphocytes. Evidence of proinflammatory cytokine signaling by IL17 and IL36A were predicted in COVID-19 lung and airway compartments. Whereas the BALF DEG profile indicated upstream regulation by both inflammatory and inhibitory cytokines, including IL6 and IL13 and IL10, respectively, the COVID-19 lung upstream regulators were markedly proinflammatory, including, NFκB, IL12, TNF, IL1B, and multiple type I interferons. Small molecules, drugs, and compounds that were predicted as upstream regulators or matched to targets indicate unique therapeutic possibilities in each tissue compartment. Of note, anti-IL17, anti-IL6, anti-IL1, anti-IFNA, anti-IFNG, and anti-TNF treatments were predicted as antagonists of SARS-CoV-2 biology. Steroids were predicted to revert the gene expression profile in the diseased lung, but were predicted as upstream regulators of COVID-19 PBMCs. Finally, chloroquine was additionally predicted to revert the SARS-CoV-2 transcription profile in the lung.

Discussion

In the present study, we utilize multiple orthogonal bioinformatics approaches to analyze differential gene expression from the blood, lung, and airway of COVID-19 patients. As a whole, our results are in agreement with the current understanding of SARS-CoV2 pathogenesis, which generally involves lymphopenia accompanied by increased activation of pro-inflammatory pathways and myeloid cells (Tay et al.). In particular, we found that DE genes from COVID-19 patients were enriched in gene signatures of interferon, complement pathways, and the inflammasome, which would be expected to initiate a robust and systemic response to infection. We also utilized various approaches to derive and characterize the expanded myeloid cell subpopulations in COVID-19 patients. These observed increases in inflammatory pathways and myeloid cell subsets are likely reflective of a dysregulated immune response that contributes to lung damage, and in severe cases, to multi-organ failure and overall poor health outcomes in COVID-19 patients. Furthermore, by comparing DE results from multiple compartments (the blood, lung, and airway) in COVID-19 patients, we have developed a model of the systemic pathogenic response to SARS-CoV2 infection (FIG. 7).

In our proposed model, after viral exposure, SARS-CoV2 enters the host airway and infects alveolar epithelial cells, which express the virus entry receptors ACE2 and TMPRSS2. In the lung tissue, we observed increased expression of Type I interferon genes, enrichment of Type I and Type II interferon gene signatures, and expression of IFN-stimulated genes including TNF and NOS2. Type I interferons are critical components of the host response to viral infection through inducing the expression of anti-viral genes and direct or indirect immune cell activation and, thus, are targets of immune evasion tactics by coronaviruses including SARS-CoV and MERS-CoV (Newton et al., 2016; Tay et al.). Type I interferons can be produced by virus-infected cells, or cells that have detected viral infection (Goritzka et al., 2015). Therefore, interferon production in the lung of COVID-19 patients is likely initiated by infected alveolar cells and propagated by activated alveolar macrophages, leading to the production of IFNγ and other pro-inflammatory mediators (Darwich et al., 2009; Newton et al., 2016). To date, reports have been divided over whether an interferon response is present in COVID-19 patients in that some reports cite a poor interferon response (Blanco-Melo et al., 2020), some observe a robust interferon response that increases with disease severity (Wei et al., 2020), and still others have found heterogeneity in whether patients exhibit an interferon response to SARS-CoV2 infection (Trouillet-Assant et al., 2020). Therefore, the interferon response to SARS-CoV2 requires further study and consideration when developing treatment strategies for individual patients.

Signals from the lung including interferon or other pro-inflammatory mediators from infected cells disseminate into the peripheral blood to launch a systemic inflammatory response. In the periphery, inflammatory mediators from the lung typically promote activation and migration of myeloid cells, NK cells, and adaptive immune cells including T and B cells, which can differentiate into effector CD8 T cells and antibody-producing plasma cells (Newton et al., 2016). We found significant deficiencies in gene signatures of T cells, NK cells, and cytotoxic cells, which include activated CD8 T cells and NK cells, in the peripheral blood of COVID-19 patients, which is consistent with clinical and analytical evidence of lymphopenia following SARS-CoV and SARS-CoV2 infection (Chen et al., 2020b; He et al., 2005; Qin et al., 2020; Xu et al., 2020). In contrast to T and NK cells, we observed increased evidence of B cell activation through CD40/CD40L and an increased plasma cell signature in PBMCs of COVID-19 patients. This result suggests that while effector CD8 T cells are deficient, that helper T (Th) cells are present and able to promote B cell activation, the generation of antibody secreting plasma cells, and an antibody-mediated immune response. However, whether a virus-specific antibody response is beneficial to recovery from SARS-CoV2 infection is unclear (Wu et al., 2020). Evidence from SARS-CoV infection suggests that the quality of the antibody produced is critical to mounting an effective anti-viral response. Low quality, low affinity antibody responses may have pathological consequences including promoting lung injury in some patients, although it is unknown if this occurs in SARS-CoV2 infected individuals (Iwasaki and Yang, 2020; Liu et al., 2019).

The predominant populations of immune cells we found to be enriched and activated in COVID-19 patients were myeloid cells and, in particular, subsets of inflammatory monocytes and macrophages, which differed between the blood, lung, and airway compartments. In the peripheral blood, we found significant enrichment of monocytes including classically activated inflammatory monocytes as well as another subset characterized by expression of CD33. This CD33⁺ myeloid subset appeared to be an alternatively activated population reminiscent of previously characterized IFN-activated macrophages and alveolar macrophages (AMs), which may represent an activation state specific to stimuli arising from the SARS-CoV2-infected lung. Myeloid cells enriched in the blood of COVID-19 patients were also correlated with pro-cell cycle and glycolysis gene signatures indicative of a metabolic status associated with pro-inflammatory M1 macrophages (Viola et al., 2019). In support of the presence of increased pro-inflammatory monocytes/macrophages, we also found significant increases in the expression of the pro-inflammatory IL-1 family member IL18, the interferon-induced chemokine CXCL10, and the chemokine receptor CCR2, all of which have cited roles in the response to respiratory virus infection (Tang et al., 2005; Teijaro, 2015; Wang et al., 2004).

In the lung tissue, we observed increased expression of a number of chemokine ligands for CCR2 (CCL2, CCL7, CCL8) and other receptors (CCL3, CXCL10, CXCL16), which would promote the mobilization of activated immune cells to the locus of infection. While in the blood, we found evidence of increased monocyte/macrophage populations, in the lung tissue, we also observed enrichment of gene signatures of other myeloid cells including neutrophils and low density granulocytes (LDGs), which we could not assess in the blood due to the process of isolating PBMCs. The role of neutrophils and LDGs in COVID-19 pathogenesis has been poorly characterized although they have been found in increased numbers and associated with poor disease outcome in COVID-19 patients (Huang et al., 2020). In addition, some have proposed that the formation of neutrophil extracellular traps (NETs) contributes to increased multi-organ damage and risk of death from SARS-CoV2 infection (Barnes et al., 2020; Thierry and Roch, 2020).

Monocyte/macrophage subsets in the lung of COVID-19 patients were characterized as infiltrating inflammatory monocytes and activated AMs, which exhibited a mixed metabolic status suggestive of different states of activation. Infiltrating monocytes from the peripheral blood appeared to be further activated in the lung tissue as evidenced by enhanced expression of alarmins and markers of highly inflammatory monocytes previously characterized in severe COVID-19 cases (Liao et al., 2020). In particular, we observed increased expression of IL-1 family members, most notably ILIA and enrichment of a pro-inflammatory IL-1 signature in the lung of COVID-19 patients. We also found evidence of a population of AMs previously defined in the BAL of COVID-19 patients (Liao et al., 2020). Alveolar macrophages are typically suppressed at steady state, but adopt a pro-inflammatory phenotype after viral infection in order to assist in phagocytosis and clearance of virus (Newton et al., 2016). However, we observed that this AM population also clustered with genes involved in the coagulation system, which is consistent with observations of procoagulant AM activity in ARDs (Tipping et al., 1988). As pulmonary thrombosis has been associated with poor clinical outcomes in COVID-19 patients, this result suggests that AMs in SARS-CoV2-infected lung tissue may be detrimental to host recovery from disease (Wichmann et al., 2020).

While we observed significant decreases in T cells in the blood of COVID-19 patients, they appeared to be increased in the lung tissue. However, upon closer examination, we noted that there was no enrichment of activated T cells or of cytotoxic CD8 T cells. This indicated that while T cells may be able to enter the infected lung tissue, they are not activated and thus lack the ability to clear virus-infected cells and resolve the inflammatory response. In cases of macrophage activation syndrome (MAS) defects in cytotoxic activity of CD8 T cells and NK cells result in increased cell-cell contacts, enhanced immune cell activation, and intensified production of pro-inflammatory cytokines. Many of the pro-inflammatory cytokines associated with MAS were also expressed in our COVID-19 patient samples, predominantly in the lung tissue and airway compartments, including IL1, IL18, and IL33 (Crayne et al., 2019; McGonagle et al., 2020). Thus, it is likely that the lack of activated CD8 T cells and NK cells and subsequent failure to clear virus-infected cells, is a major contributor to the dysregulated, macrophage-driven pathologic response to SARS-CoV2 observed in COVID-19 patients.

As disease progresses, increased infiltration of pro-inflammatory immune cells and release of inflammatory mediators in the lung is emulated by the presence of immune cells in the airway, which can be sampled through the BAL (Heron et al., 2012). Thus, the contents of the BAL fluid acts as a diagnostic marker or sensor for what is occurring in the lung tissue. In the airway, we detected gene signatures of various post-activated macrophage subsets including inflammatory M1 macrophages, alternatively activated M2 macrophages, and activated alveolar macrophages that had either migrated or been shed from the lung tissue. In conjunction with the presence of inflammatory macrophages, our results revealed a prominent IL-1 family signature in the airway of COVID-19 patients above what we observed in the blood or lung tissue and, in particular, an over 10-fold increase in expression of the alarmins ILIA and IL33 (Jing et al., 2016; Schmitz et al., 2005). These alarmins act as danger signals released by dead or dying cells to promote immune cell activation and therefore, their presence in the airway is likely indicative of an increase in virally infected lung cells. As SARS-CoV2 continues to propagate and viral clearance is impaired by a lack of cytotoxic activity, these alarmins promote inflammation and prevent resolution of the immune response in COVID-19 patients. Thus, this result further supports the notion that IL-1-mediated inflammation plays a critical role in COVID-19 pathogenesis. Expression of myeloid cell genes in the airway also correlated with a signature of oxidative metabolism, which is characteristic of M2 macrophages and typically associated with control of tissue damage (Viola et al., 2019). However, in the context of pulmonary infection, polarization of alveolar macrophages toward an anti-inflammatory M2 phenotype was found to promote continued pathogenesis, suggesting that these macrophages may not be effective mediators of anti-viral immunity (Allard et al., 2018).

We found increased enrichment of lung epithelial cells as well as increased expression of the viral entry receptors ACE2 and TMPRSS2, which are expressed by these cells, exclusively in the airway of COVID-19 patients. The presence of non-hematopoietic cells such as lung epithelium in the BAL is indicative of damage to the lung tissue as dead or dying cells are being sloughed off into the airway and suggests that localized inflammation as a result of enhanced immune cell infiltration promotes significant damage to the lung tissue. Furthermore, the lack of cytotoxic cells and thus, the inability to clear these virus-infected lung epithelial cells in the airway likely accounts for the increased presence of post-activated macrophages and high expression of pro-inflammatory IL-1 family members we observed in the BAL of COVID-19 patients. However, in contrast to previous characterizations of both SARS-CoV and SARS-CoV2 infection, our analysis did not indicate the presence of overwhelming pro-inflammatory cytokine production or “cytokine storm” (Tay et al.). Rather our data suggests that the increased numbers, overactivation, and potentially heightened pathogenicity of monocyte/macrophage populations are the main drivers of the dysregulated immune response and resulting tissue damage in COVID-19 patients.

Big Data Analyses Facilitate Drug Prediction

In the absence of effective antiviral treatment and/or a SARS-CoV2-specific vaccine, disease management is reliant upon supportive care and therapeutics capable of limiting the severity of clinical manifestations. Using empirical evidence as a guide, the current approach has been successful in identifying “actionable” points of intervention in an unbiased manner and in spite of formidable patient heterogeneity. Analyses presented here support several recent reports highlighting COVID19 infection-related increases in secreted factors, particularly IL6 and TNF, both of which function as predictors of poor prognosis (Pedersen and Ho, 2020; Voiriot et al., 2017), as well as complement activation (Gao et al., 2020; Huang et al., 2020; Mehta et al., 2020). Accordingly, anti-IL6 therapies including sarilumab, tocilizumab and clazakizumab, as well as biologics targeting terminal components of the complement cascade, such as eculizumab and ravulizumab, are in various clinical trial phases for treating COVID19 associated pneumonia. Candidate TNF blockers such as adalimumab, entanercept and many others, represent additional options for inhibiting deleterious pro-inflammatory signaling. Interestingly, numerous tubulin inhibitors were identified among the complied list of drugs counteracting infection-induced genomic changes; it is therefore of note that clinical trials involving colchicine, an antimitotic drug that binds soluble tubulin, are currently underway, providing further validation for the unbiased drug-prediction methodology presented here. Our analyses also point to the likely involvement of pro-inflammatory IL1 family members especially in the lung, suggesting anti-IL1 interventions, including canakinumab and anakinra, may be effective in preventing acute lung injury.

Overall, this report establishes the predominance of inflammatory monocyte/myeloid lineage cells in driving disease pathology and suggest therapies effective at blocking myeloid cell recruitment or forcing repolarization may prevent disease progression. CCL5 (RANTES) is a potent leukocyte chemoattractant that interacts with multiple receptors, including CCR1 (upregulated in the blood, lung and airway), and CCR5 (upregulated in the airway). Disruption of the CCR5-CCL5 axis was recently tested using the CCR5 blocking monoclonal antibody leronlimab in a small compassionate use trial with promising preliminary results (Pattterson et al.). Similarly, CD74 which functions as the receptor for the pro-inflammatory cytokine macrophage migration inhibitory factor (MIF), was upregulated specifically in the lung and represents an attractive target for intervention by imalumab, an anti-MIF monoclonal antibody.

It has also been observed that COVID19 may predispose patients to thromboembolic disease (Klok et al., 2020; Middeldorp et al., 2020). Indeed, the gene expression analyses presented here showing altered expression of coagulation factors and fibrinogen genes suggests dysfunction within the intrinsic clotting pathway. These findings, together with evidence of excessive inflammation and complement activation, may contribute to the systemic coagulation underlying the remarkably high incidence of thrombotic complications observed in severely ill patients, thereby reinforcing recommendations to apply pharmacological anti-thrombotic medications.

Finally, there has been much recent discussion concerning the use of anti-rheumatic drugs for managing COVID19. In fact, chloroquine (CQ) was one compound predicted as an upstream regulator with potential phenotype-reversing properties. In vitro experiments examining the anti-viral properties of CQ and its derivative hydroxychloroquine (HCQ) were effective in limiting viral load, however the efficacy of these drugs in clinical trials has been less clear. Questions about drug timing, dosage and adverse events have all called into question the use of these drugs for COVID19 patients.

Using systems and methods of the present disclosure, a treatment may be selected for an individual based on data analyses of biological samples obtained from the individual, in order to treat or manage a COVID19 disease state or condition of the individual. For example, a targeted treatment for the blood may be selected for an individual based on data analyses of biological samples obtained from the individual, in order to treat or manage a COVID19 disease state or condition of the individual. For example, a targeted treatment for the lungs may be selected for an individual based on data analyses of biological samples obtained from the individual, in order to treat or manage a COVID19 disease state or condition of the individual. For example, a targeted treatment for the airways may be selected for an individual based on data analyses of biological samples obtained from the individual, in order to treat or manage a COVID19 disease state or condition of the individual. In some embodiments, the treatment may be selected from among a plurality of different treatments for an individual based on data analyses of biological samples obtained from the individual, in order to treat or manage a COVID19 disease state or condition of the individual.

Weighted Gene Co-Expression Network Association

DEseq2 normalized log 2 transformed RNAseq gene counts for CRA2390 and GSE147507 datasets were used as inputs to WGCNA (V1.69). Adjacency co-expression matrices for all genes in a given set were calculated by Pearson's correlation using signed network type specific formulae. Blockwise network construction was performed using a soft threshold power value of 30 in order to preserve maximal scale free topology of the networks. Resultant dendrograms of correlation networks were trimmed to isolate individual modular groups of genes, labeled using semi-random color assignments, based on a detection cut height of 1, with a merging cut height of 0.2, with the additional use of a partitioning around medoids function. The module eigenegene (ME) vector per sample was calculated as the first principle component of the module's gene expression counts. Module correlations to cohort were calculated using Pearson's r against MEs, defining modules as either positively or negatively correlated as a whole by averaging constituent sample ME correlations to cohort. The strength of module representation was established by inspecting the number of members of the disease or healthy samples contributing to the overall average ME correlation to disease state. Majority modules highly representative of their cohort were those where more than half of the cohort constituent MEs were correlated in the same direction and general scale to cohort. Quality majority modules were those with the additional requirement that the opposing cohort correlations were all running in the opposite direction. Minority quality disease state modules were considered as being more representative of genetic expressions unique to patient rather than cohort. Module membership statistics were calculated including kIM, a measurement of intramodular connectivity of each gene's expression values across samples to neighboring module genes, kME, the correlation of each gene to its containing module eigengene, and general correlation of gene expression values to cohort. Hub genes were considered as those with the highest kIMs, and as a general rule also had the highest kMEs. Complete composite module preservation statistics were calculated using WGCNA's modulePreservation function through 200 permutations of the three data sets independently tested against each other as either a reference or test set. The Z summary statistic was selected as the global index of module preservation and is a composite of seven density and connectivity preservation statistics. All constituent statistics were retained for future granular analysis. Modules were considered as moderately preserved between reference-test network pairs as those with a Z summary statistic between 5 and 10, and as highly preserved as those with a Z summary score above 10. Preservation median rank was calculated to scale module preservation to module size. Gene symbols common between moderately and highly preserved modules in each reference-test pair were selected for ensuing GSVA enrichment analysis.

MEGENA Gene Co-Expression Network Association

The MEGENA (Multiscale Embedded Gene Co-expression Network Analysis) package (v1.3.7) was applied to reconstruct co-expression networks, as described by, for example, [Won-Min Song and Bin Zhang (2018). MEGENA: Multiscale Clustering of Geometrical Network. R package version 1.3.7. CRAN.R-project.org/package=MEGENA], which is incorporated by reference herein in its entirety. The DEseq2 normalized log 2 transformed RNAseq gene counts used for WGCNA analysis were used for initial MEGENA correlation calculation. Gene expression rows with a standard deviation of less than 0.2 were discarded. The correlations between all remaining gene pairs was calculated using Pearson's correlation coefficient (φ using MEGENA's calculation correlation function. After calculation of true pairwise ρ values, a permutation procedure determined the necessary ρ value necessary to achieve a false positive rate (FPR) of 0.05. The gene expression matrix was shuffled through 10 permutations and ρ coefficient results were pooled. Gene correlations greater than an FPR of 0.05 were discarded. An FDR threshold of 15% was additionally enforced to reduce type-one errors. Thresholded FDR correlations were submitted to the MEGENA package for generation of a planar filtered network (PFN) of genes mapped to each other through network connectivity strength. Briefly, gene pairs were first ranked based on expression similarity and then iteratively tested for planarity to expand the PFN, while favoring those pairs with larger similarities. Multi-scale module structures were generated through Multiscale Clustering Analysis (MCA) by clustering initial connected components of the PFN as parent clusters, with clustering repeated in an iterative fashion down through module lineages until no meaningful descendent modules remained to split. A minimum module size of 20 genes was enforced throughout. Multiscale Hub Analysis (MHA) was performed to detect significant hubs of individual clusters and across a, characterizing different scales of organizations in the PFN with emphasis given to multiscale hubs. Significant MEGENA modules were selected that showed a significance of compactness by p<0.05. Analogous to WGCNA, Cluster-Trait Association Analysis (CTA) was performed by performing principle component analysis (PCA) on each module and correlated to cohort, with correlation significance set to Fisher's adjust p value <0.05. First-generation modules (founding members of their lineage) were examined for various cell and pathway signature gene set variation analysis (GSVA) enrichments, with significant enrichments as those with a Hedge's corrected adjusted p value <0.05. MEGENA modules were coerced into WGCNA's module preservation function and analyzed as before by considering overlapping genes from reference-test network pairs with a mutual minimum composite Z summary statistic of 5. MEGENA modules were renamed to indicate their pedigree and networks were visualized using sunburst diagrams to depict module lineages. Some sunbursts were colored using majority WGCNA color assignment to elucidate differences in module creation between the MEGENA and WGCNA approaches. Some were colored using majority cell signature enrichment to demonstrate inheritance of cell signature through module lineage, and others colored with gene expression log-fold change. Heatmaps of log 2 transformed module gene expression were inspected to establish how well modules represented their cohort, similar to majority and minority quality WGCNA modules. Heatmaps were also generated of various module GSVA cell signature enrichments to further curate modules of immunological and other interests.

Module Gene Co-Expression Network Visualization

Modules showing high enrichment of cell signatures of interest were selected for additional enrichment analysis, pathway annotation, and network visualization. Module official HGNC gene symbols were imported into Cytoscape (v3.8.0) through its STRING (v11) protein query set to a confidence score cutoff of 0.9 with zero allowed maximum additional interactions. Cytoscope is described by, for example, [Shannon P, Markiel A, Ozier O, Baliga N S, Wang J T, Ramage D, Amin N, Schwikowski B, Ideker T. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res, 13:11 (2498-504). 2003 November PubMed ID: 14597658], which is incorporated by reference herein in its entirety. String is described by, for example, [Szklarczyk D, Gable A L, Lyon D, Junge A, Wyder S, Huerta-Cepas J, Simonovic M, Doncheva N T, Morris J H, Bork P, Jensen L J, von Mering C. STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res. 2019 January; 47:D607-613], which is incorporated by reference herein in its entirety. Edges (connections) between gene nodes were weighted as the STRING connection strengths. Genes with less than 3 connections to adjacent nodes were discarded. MCODE clustering was calculated on the whole network with a degree cutoff of 2 and clusters found allowing haircut and fluff, and some visualizations colored by MCODE cluster, as described by, for example, [Bader G D, Hogue C W. An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinformatics, 4: (2). 2003 Jan. 13. PubMed ID: 12525261], which is incorporated by reference herein in its entirety. AMPEL cell signature annotations were merged to the nodes data table and used to adjust node color, border color, and sizes to call out genes of interest. Various attribute and network cluster algorithms from the Cytoscape clusterMaker app were applied to help simplify visualizations, including GLay community clustering, as described by, for example, [Morris J H, Apeltsin L, Newman A M, Baumbach J, Wittkop T, Su G, Bader G D, Ferrin T E. clusterMaker: a multi-algorithm clustering plugin for Cytoscape. BMC Bioinformatics, 12: (436). 2011 Nov. 9. PubMed ID: 22070249], which is incorporated by reference herein in its entirety. BiNGO was used to query various GO (gene ontology) pathways to further elucidate network relations to biological processes, as described by, for example, [Maere S, Heymans K, Kuiper M. BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics, 21:16 (3448-9). 2005 Aug. 15. PubMed ID: 15972284], which is incorporated by reference herein in its entirety. Clusters from various modules were visualized together and examined for interconnectedness. Meta clusters were created by combining genes with similar functional annotation into composite nodes, with edges between them weighted as the total number of MCODE connections between constituent genes.

Derivation of Lung Tissue Cell Populations for GSVA

Nine single-cell RNA-seq lung cell populations (AT1, AT2, Ciliated, Club, Endothelial, Fibroblasts, Immuno Monocytes, Immuno T Cells, and Lymphatic Endothelium) were downloaded from the Eils Lung Tissues set (www.biorxiv.org/content/10.1101/2020.03.13.991455v3) accessed by the UC Santa Cruz Genome Browser (eils-lung.cells.ucsc.edu). Genes occurring in more than one cell type were removed. Additionally, genes known to be expressed by immune cells were removed. The Immuno Monocyte and Immuno T cell categories were not employed in further analyses.

Derivation of Co-Expressed Myeloid Subpopulations in Each Compartment

Co-expression analyses were conducted in R. Sample (control and patient) log 2 expression values for each gene of the 221 identified monocyte/myeloid cell genes in were analyzed for their Pearson correlation coefficient in each tissue compartment (PBMC, lung, BAL) using the Cor function. Of note, only 195 of 221 genes had changes in gene expression in at least one tissue by RNA-seq, and these genes are shown. Resulting correlation matrices were hierarchically clustered by their Euclidian distance into 2 clusters (k=2) using the heatmap.2 function in R. This resulted in 2 monocyte/myeloid co-expressed clusters in each compartment. The co-expressed myeloid populations in each compartment were then evaluated by GSVA.

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[Klok, F. A., Kruip, M. J. H. A., van der Meer, N. J. M., Arbous, M. S., Gommers, D. A. M. P. J., Kant, K. M., Kaptein, F. H. J., van Paassen, J., Stals, M. A. M., Huisman, M. V, et al. (2020). Incidence of thrombotic complications in critically ill ICU patients with COVID-19. Thromb. Res.] is incorporated by reference herein in its entirety.

[Lazear, H. M., Schoggins, J. W., and Diamond, M. S. (2019). Shared and Distinct Functions of Type I and Type III Interferons. Immunity 50, 907-923.] is incorporated by reference herein in its entirety.

[Liao, M., Liu, Y., Yuan, J., Wen, Y., Xu, G., Zhao, J., Chen, L., Li, J., Wang, X., Wang, F., et al. (2020). The landscape of lung bronchoalveolar immune cells in COVID-19 revealed by single-cell RNA sequencing. MedRxiv 2020.02.23.20026690.] is incorporated by reference herein in its entirety.

[Lindell, D. M., Lane, T. E., and Lukacs, N. W. (2008). CXCL10/CXCR3-mediated responses promote immunity to respiratory syncytial virus infection by augmenting dendritic cell and CD8 (+) T cell efficacy. Eur. J. Immunol. 38, 2168-2179.] is incorporated by reference herein in its entirety.

[Liu, L., Wei, Q., Lin, Q., Fang, J., Wang, H., Kwok, H., Tang, H., Nishiura, K., Peng, J., Tan, Z., et al. (2019). Anti-spike IgG causes severe acute lung injury by skewing macrophage responses during acute SARS-CoV infection. JCI Insight 4, 1-19.] is incorporated by reference herein in its entirety.

[Lovren, F., Pan, Y., Quan, A., Teoh, H., Wang, G., Shukla, P. C., Levitt, K. S., Oudit, G. Y., A1-Omran, M., Stewart, D. J., et al. (2008). Angiotensin converting enzyme-2 confers endothelial protection and attenuates atherosclerosis. Am. J. Physiol.—Hear. Circ. Physiol. 295, 1377-1384.] is incorporated by reference herein in its entirety.

[Martinez, F. O., Gordon, S., Locati, M., and Mantovani, A. (2006). Transcriptional profiling of the human monocyte-to-macrophage differentiation and polarization: new molecules and patterns of gene expression. J. Immunol. 177, 7303-7311.] is incorporated by reference herein in its entirety.

[McGonagle, D., Sharif, K., O'Regan, A., and Bridgewood, C. (2020). The Role of Cytokines including Interleukin-6 in COVID-19 induced Pneumonia and Macrophage Activation Syndrome-Like Disease. Autoimmun. Rev. 102537.] is incorporated by reference herein in its entirety.

[Mehta, P., McAuley, D. F., Brown, M., Sanchez, E., Tattersall, R. S., and Manson, J. J. (2020). COVID-19: consider cytokine storm syndromes and immunosuppression. Lancet (London, England) 395, 1033-1034.] is incorporated by reference herein in its entirety.

[Middeldorp, S., Coppens, M., van Haaps, T. F., Foppen, M., Vlaar, A. P., Muller, M. C. A., Bouman, C. C. S., Beenen, L. F. M., Kootte, R. S., Heijmans, J., et al. (2020). Incidence of venous thromboembolism in hospitalized patients with COVID-19. J. Thromb. Haemost.] is incorporated by reference herein in its entirety.

[Newton, A. H., Cardani, A., and Braciale, T. J. (2016). The host immune response in respiratory virus infection: balancing virus clearance and immunopathology. Semin. Immunopathol. 38, 471-482.] is incorporated by reference herein in its entirety.

[Pattterson, B., Corley, M., Pang, A., and Wu, H. Disruption of the CCL5/RANTES-CCR5 Pathway Restores Immune Homeostasis and Reduces Plasma Viral Load in Critical COVID-19 CURRENT STATUS: POSTED. 1-20.] is incorporated by reference herein in its entirety.

[Pedersen, S. F., and Ho, Y.-C. (2020). SARS-CoV-2: a storm is raging. J. Clin. Invest. 130, 2202-2205.] is incorporated by reference herein in its entirety.

[Qin, C., Zhou, L., Hu, Z., Zhang, S., Yang, S., Tao, Y., Xie, C., Ma, K., Shang, K., Wang, W., et al. (2020). Dysregulation of immune response in patients with COVID-19 in Wuhan, China. Clin. Infect. Dis. 2019, 4-10.] is incorporated by reference herein in its entirety.

[Reyfman, P. A., Walter, J. M., Joshi, N., Anekalla, K. R., McQuattie-Pimentel, A. C., Chiu, S., Fernandez, R., Akbarpour, M., Chen, C.-I., Ren, Z., et al. (2019). Single-Cell Transcriptomic Analysis of Human Lung Provides Insights into the Pathobiology of Pulmonary Fibrosis. Am. J. Respir. Crit. Care Med. 199, 1517-1536.] is incorporated by reference herein in its entirety.

[Schmitz, N., Kurrer, M., Bachmann, M. F., and Kopf, M. (2005). Interleukin-1 Is Responsible for Acute Lung Immunopathology but Increases Survival of Respiratory Influenza Virus Infection. J. Virol. 79, 6441-6448.] is incorporated by reference herein in its entirety.

[Sungnak, W., Huang, N., Bécavin, C., Berg, M., Queen, R., Litvinukova, M., Talavera-Lopez, C., Maatz, H., Reichart, D., Sampaziotis, F., et al. (2020). SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes. Nat. Med. 1-7.] is incorporated by reference herein in its entirety.

[Suzuki, T., Arumugam, P., Sakagami, T., Lachmann, N., Chalk, C., Sallese, A., Abe, S., Trapnell, C., Carey, B., Moritz, T., et al. (2014). Pulmonary macrophage transplantation therapy. Nature 514, 450-454.] is incorporated by reference herein in its entirety.

[Tang, N. L. S., Chan, P. K. S., Wong, C. K., To, K. F., Wu, A. K. L., Sung, Y. M., Hui, D. S. C., Sung, J. J. Y., and Lam, C. W. K. (2005). Early enhanced expression of interferon-inducible protein-10 (CXCL-10) and other chemokines predicts adverse outcome in severe acute respiratory syndrome. Clin. Chem. 51, 2333-2340.] is incorporated by reference herein in its entirety.

[Tay, M. Z., Poh, C. M., Rénia, L., Macary, P. A., and Ng, L. F. P. The trinity of COVID-19: immunity, inflammation and intervention 1,2.] is incorporated by reference herein in its entirety.

[Teijaro, J. R. (2015). The role of cytokine responses during influenza virus pathogenesis and potential therapeutic options. Curr. Top. Microbiol. Immunol. 386, 3-22.] is incorporated by reference herein in its entirety.

[Thierry, A. R., and Roch, B. (2020). NETs by-products and extracellular DNA may play a key role in COVID-19 pathogenesis: incidence on patient monitoring and therapy. 1-21.] is incorporated by reference herein in its entirety.

[Tipping, P. G., Campbell, D. A., Boyce, N. W., and Holdsworth, S. R. (1988). Alveolar macrophage procoagulant activity is increased in acute hyperoxic lung injury. Am. J. Pathol. 131, 206-212.] is incorporated by reference herein in its entirety.

[Trouillet-Assant, S., Viel, S., Gaymard, A., Pons, S., Richard, J.-C., Perret, M., Villard, M., Brengel-Pesce, K., Lina, B., Mezidi, M., et al. (2020). Type I IFN immunoprofiling in COVID-19 patients. J. Allergy Clin. Immunol.] is incorporated by reference herein in its entirety.

[Viola, A., Munari, F., Sanchez-Rodriguez, R., Scolaro, T., and Castegna, A. (2019). The metabolic signature of macrophage responses. Front. Immunol. 10, 1-16.] is incorporated by reference herein in its entirety.

[Voiriot, G., Razazi, K., Amsellem, V., Tran Van Nhieu, J., Abid, S., Adnot, S., Mekontso Dessap, A., and Maitre, B. (2017). Interleukin-6 displays lung anti-inflammatory properties and exerts protective hemodynamic effects in a double-hit murine acute lung injury. Respir. Res. 18, 64.] is incorporated by reference herein in its entirety.

[Wang, S.-Z., Bao, Y.-X., Rosenberger, C. L., Tesfaigzi, Y., Stark, J. M., and Harrod, K. S. (2004). IL-12p40 and IL-18 modulate inflammatory and immune responses to respiratory syncytial virus infection. J. Immunol. 173, 4040-4049.] is incorporated by reference herein in its entirety.

[Wang, X., Guo, X., Xin, Q., Pan, Y., Li, J., Chu, Y., Feng, Y., and Wang, Q. (2020). Neutralizing Antibodies Responses to SARS-CoV-2 in COVID-19 Inpatients and Convalescent Patients. MedRxiv 2020.04.15.20065623.] is incorporated by reference herein in its entirety.

[Wei, L., Ming, S., Zou, B., Wu, Y., Hong, Z., Li, Z., Zheng, X., Huang, M., Luo, L., Liang, J., et al. (2020). Viral Invasion and Type I Interferon Response Characterize the Immunophenotypes During Covid-19 Infection. SSRN Electron. J.] is incorporated by reference herein in its entirety.

[Wen, W., Su, W., Tang, H., Le, W., Zhang, X., and Zheng, Y. (2020). Immune Cell Profiling of COVID-19 Patients in the recovery stage by Single-cell sequencing.] is incorporated by reference herein in its entirety.

[Wichmann, D., Sperhake, J.-P., Lütgehetmann, M., Steurer, S., Edler, C., Heinemann, A., Heinrich, F., Mushumba, H., Kniep, I., Schröder, A. S., et al. (2020). Autopsy Findings and Venous Thromboembolism in Patients With COVID-19: A Prospective Cohort Study. Ann. Intern. Med.] is incorporated by reference herein in its entirety.

[Wu, F., Wang, A., Liu, M., Wang, Q., Chen, J., Xia, S., Ling, Y., Zhang, Y., Xun, J., Lu, L., et al. (2020). Neutralizing antibody responses to SARS-CoV-2 in a COVID-19 recovered patient cohort and their implications. MedRxiv 2020.03.30.20047365.] is incorporated by reference herein in its entirety.

[Xiong, Y., Liu, Y., Cao, L., Wang, D., Guo, M., Jiang, A., Guo, D., Hu, W., Yang, J., Tang, Z., et al. (2020). Transcriptomic characteristics of bronchoalveolar lavage fluid and peripheral blood mononuclear cells in COVID-19 patients. Emerg. Microbes Infect. 9, 761-770.] is incorporated by reference herein in its entirety.

[Xu, Z., Shi, L., Wang, Y., Zhang, J., Huang, L., Zhang, C., Liu, S., Zhao, P., Liu, H., Zhu, L., et al. (2020). Pathological findings of COVID-19 associated with acute respiratory distress syndrome. Lancet Respir. Med. 8, 420-422.] is incorporated by reference herein in its entirety.

[Zhang, B., Zhou, X., Qiu, Y., Feng, F., Feng, J., Jia, Y., Zhu, H., Hu, K., Liu, J., Liu, Z., et al. (2020). Clinical characteristics of 82 death cases with COVID-19. MedRxiv 2020.02.26.20028191.] is incorporated by reference herein in its entirety.

Table of 33 Modules

geneSymbol
geneEntrezID
GeneSet

CD160
11126
Anergic/Activated T cells

CD244
51744
Anergic/Activated T cells

CTLA4
1493
Anergic/Activated T cells

HAVCR2
84868
Anergic/Activated T cells

ICOS
29851
Anergic/Activated T cells

KLRG1
10219
Anergic/Activated T cells

LAG3
3902
Anergic/Activated T cells

PDCD1
5133
Anergic/Activated T cells

IL1RN
3557
Anti inflammation

TNFAIP3
7128
Anti inflammation

SOCS3
9021
Anti inflammation

IGHD
3495
B cells

SH3BP5
9467
B cells

BANK1
55024
B cells

BLK
640
B cells

BLNK
29760
B cells

CD19
930
B cells

CD22
933
B cells

CD79A
973
B cells

CD79B
974
B cells

DAPP1
27071
B cells

FCRL1
115350
B cells

FCRL2
79368
B cells

FCRL3
115352
B cells

FCRLA
84824
B cells

GON4L
54856
B cells

GPR183
1880
B cells

IGHM
3507
B cells

KLHL6
89857
B cells

MS4A1
931
B cells

PAX5
5079
B cells

PLCL2
23228
B cells

VPREB1
7441
B cells

ZNF318
24149
B cells

CD8A
925
CD8T-NK-NKT

CD8B
926
CD8T-NK-NKT

GZMB
3002
CD8T-NK-NKT

NKTR
4820
CD8T-NK-NKT

CD2
914
CD8T-NK-NKT

CD7
924
CD8T-NK-NKT

CRTAM
56253
CD8T-NK-NKT

GNLY
10578
CD8T-NK-NKT

GZMA
3001
CD8T-NK-NKT

GZMK
3003
CD8T-NK-NKT

GZMM
3004
CD8T-NK-NKT

HCST
10870
CD8T-NK-NKT

KIR2DL3
3804
CD8T-NK-NKT

KIR3DL1
3811
CD8T-NK-NKT

KIR3DL2
3812
CD8T-NK-NKT

KLRB1
3820
CD8T-NK-NKT

KLRC3
3823
CD8T-NK-NKT

KLRC4
8302
CD8T-NK-NKT

KLRD1
3824
CD8T-NK-NKT

NKG7
4818
CD8T-NK-NKT

RASAL3
64926
CD8T-NK-NKT

TIA1
7072
CD8T-NK-NKT

TXK
7294
CD8T-NK-NKT

BRCA1
672
Cell Cycle

ASPM
259266
Cell Cycle

AURKA
6790
Cell Cycle

AURKB
9212
Cell Cycle

CCNB1
891
Cell Cycle

CCNB2
9133
Cell Cycle

CCNE1
898
Cell Cycle

CDC20
991
Cell Cycle

CENPM
79019
Cell Cycle

CEP55
55165
Cell Cycle

E2F3
1871
Cell Cycle

GINS2
51659
Cell Cycle

MCM10
55388
Cell Cycle

MCM2
4171
Cell Cycle

MKI67
4288
Cell Cycle

NCAPG
64151
Cell Cycle

NDC80
10403
Cell Cycle

PTTG1
9232
Cell Cycle

TYMS
7298
Cell Cycle

GZMB
3002
Cytotoxic, Activated T cells

TAGAP
117289
Cytotoxic, Activated T cells

CD69
969
Cytotoxic, Activated T cells

EOMES
8320
Cytotoxic, Activated T cells

GZMH
2999
Cytotoxic, Activated T cells

IFNG
3458
Cytotoxic, Activated T cells

IL2RB
3560
Cytotoxic, Activated T cells

PRF1
5551
Cytotoxic, Activated T cells

SGK1
6446
Cytotoxic, Activated T cells

TBX21
30009
Cytotoxic, Activated T cells

TFRC
7037
Cytotoxic, Activated T cells

ZNF683
257101
Cytotoxic, Activated T cells

CLEC12A
160364
Dendritic

CLEC10A
10462
Dendritic

CLEC9A
283420
Dendritic

CSF1R
1436
Dendritic

IGIP
492311
Dendritic

LILRA4
23547
Dendritic

LY75
4065
Dendritic

XCR1
2829
Dendritic

EPO
2056
Erythrocytes

GFI1B
8328
Erythrocytes

GYPA
2993
Erythrocytes

GYPB
2994
Erythrocytes

GYPE
2996
Erythrocytes

ICAM4
3386
Erythrocytes

NFE2
4778
Erythrocytes

SLC4A1
6521
Erythrocytes

TRIM10
10107
Erythrocytes

TSPO2
222642
Erythrocytes

ZNF367
195828
Erythrocytes

CXCR2
3579
Granulocyte

CD177
57126
Granulocyte

CLC
1178
Granulocyte

CTSS
1520
Granulocyte

DEFA1
1667
Granulocyte

FUT7
2529
Granulocyte

LTB4R
1241
Granulocyte

MMP25
64386
Granulocyte

OSM
5008
Granulocyte

RETN
56729
Granulocyte

GBP1
2633
IFN

IFI44
10561
IFN

MX1
4599
IFN

NAMPT
10135
IFN

NKTR
4820
IFN

NR3C1
2908
IFN

OAS3
4940
IFN

PATJ
10207
IFN

TAP2
6891
IFN

TNFRSF11A
8792
IFN

FASLG
356
IFN

WT1
7490
IFN

EIF2AK2
5610
IFN

GBP2
2634
IFN

GBP4
115361
IFN

HERC5
51191
IFN

HERC6
55008
IFN

IFI27
3429
IFN

IFI30
10437
IFN

IFI35
3430
IFN

IFI44L
10964
IFN

IFI6
2537
IFN

IFIT1
3434
IFN

IFIT2
3433
IFN

IFIT3
3437
IFN

IFIT5
24138
IFN

IFITM1
8519
IFN

IFITM2
10581
IFN

IFITM3
10410
IFN

ISG15
9636
IFN

ISG20
3669
IFN

MX2
4600
IFN

NFE2L3
9603
IFN

NMI
9111
IFN

NUB1
51667
IFN

NUPR1
26471
IFN

OAS1
4938
IFN

OAS2
4939
IFN

OASL
8638
IFN

PDGFB
5155
IFN

PDGFRL
5157
IFN

PKD2
5311
IFN

PLSCR1
5359
IFN

PMAIP1
5366
IFN

PML
5371
IFN

PRKRA
8575
IFN

PSMB9
5698
IFN

PTCH1
5727
IFN

RBCK1
10616
IFN

RGS1
5996
IFN

RGS6
9628
IFN

RSAD2
91543
IFN

RTP4
64108
IFN

SAMD9
54809
IFN

SAMD9L
219285
IFN

SAT1
6303
IFN

SCARB2
950
IFN

SERPING1
710
IFN

SIT1
27240
IFN

SOCS1
8651
IFN

SP100
6672
IFN

SP110
3431
IFN

SP140
11262
IFN

SPIB
6689
IFN

ST3GAL5
8869
IFN

STAP1
26228
IFN

STAT1
6772
IFN

STAT2
6773
IFN

STX11
8676
IFN

SUPT3H
8464
IFN

TAP1
6890
IFN

TARBP1
6894
IFN

TCN2
6948
IFN

TFDP2
7029
IFN

TGM1
7051
IFN

TLR3
7098
IFN

TLR7
51284
IFN

TNFSF10
8743
IFN

TNK2
10188
IFN

TOR1B
27348
IFN

TRA2B
6434
IFN

TRD
6964
IFN

TRIM21
6737
IFN

TRIM22
10346
IFN

TRIM34
53840
IFN

TRIM38
10475
IFN

UBA7
7318
IFN

UBE2L6
9246
IFN

UBE2S
27338
IFN

UNC93B1
81622
IFN

USP18
11274
IFN

WARS
7453
IFN

XAF1
54739
IFN

IGHG1
3500
IG CHAINS

IGHV2-5
28457
IG CHAINS

IGHV3-20
28445
IG CHAINS

IGHV3-23
28442
IG CHAINS

IGHV4-28
28400
IG CHAINS

IGHV4-34
28395
IG CHAINS

IGKC
3514
IG CHAINS

IGLV1-40
28825
IG CHAINS

IGLV3-1
28809
IG CHAINS

IGLV3-19
28797
IG CHAINS

IGLV3-25
28793
IG CHAINS

IGLV4-3
28786
IG CHAINS

IGLV4-60
28785
IG CHAINS

IGLV5-45
28781
IG CHAINS

IGLV6-57
28778
IG CHAINS

IGLVI-70
28763
IG CHAINS

IGHA1
3493
IG CHAINS

IGHA2
3494
IG CHAINS

IGHD2-15
28503
IG CHAINS

IGHD2-2
28505
IG CHAINS

IGHD2-21
28502
IG CHAINS

IGHD3-10
28499
IG CHAINS

IGHD3-16
28498
IG CHAINS

IGHD3-3
28501
IG CHAINS

IGHD3-9
28500
IG CHAINS

IGHG2
3501
IG CHAINS

IGHG3
3502
IG CHAINS

IGHG4
3503
IG CHAINS

IGHJ1
28483
IG CHAINS

IGHJ2
28481
IG CHAINS

IGHJ3
28479
IG CHAINS

IGHJ4
28477
IG CHAINS

IGHJ5
28476
IG CHAINS

IGHJ6
28475
IG CHAINS

IGHV1-18
28468
IG CHAINS

IGHV1-2
28474
IG CHAINS

IGHV1-24
28467
IG CHAINS

IGHV1-3
28473
IG CHAINS

IGHV1-45
28466
IG CHAINS

IGHV1-46
28465
IG CHAINS

IGHV1-58
28464
IG CHAINS

IGHV1-69-2
28458
IG CHAINS

IGHV2-26
28455
IG CHAINS

IGHV2-70
28454
IG CHAINS

IGHV3-13
28449
IG CHAINS

IGHV3-15
28448
IG CHAINS

IGHV3-21
28444
IG CHAINS

IGHV3-33
28434
IG CHAINS

IGHV3-43
28426
IG CHAINS

IGHV3-48
28424
IG CHAINS

IGHV3-49
28423
IG CHAINS

IGHV3-53
28420
IG CHAINS

IGHV3-62
28416
IG CHAINS

IGHV3-64
28414
IG CHAINS

IGHV3-7
28452
IG CHAINS

IGHV3-72
28410
IG CHAINS

IGHV3-73
28409
IG CHAINS

IGHV3-74
28408
IG CHAINS

IGHV4-30-2
28398
IG CHAINS

IGHV4-39
28394
IG CHAINS

IGHV4-59
28392
IG CHAINS

IGHV4-61
28391
IG CHAINS

IGHV5-51
28388
IG CHAINS

IGHV6-1
28385
IG CHAINS

IGHV7-81
28378
IG CHAINS

IGKJ1
28950
IG CHAINS

IGKJ2
28949
IG CHAINS

IGKJ3
28948
IG CHAINS

IGKJ4
28947
IG CHAINS

IGKJ5
28946
IG CHAINS

IGKV1-16
28938
IG CHAINS

IGKV1-17
28937
IG CHAINS

IGKV1-27
28935
IG CHAINS

IGKV1-5
28299
IG CHAINS

IGKV1-6
28943
IG CHAINS

IGKV1-9
28941
IG CHAINS

IGKV1D-16
28901
IG CHAINS

IGKV1D-17
28900
IG CHAINS

IGKV1D-43
28891
IG CHAINS

IGKV1D-8
28904
IG CHAINS

IGKV2-24
28923
IG CHAINS

IGKV2D-26
28884
IG CHAINS

IGKV2D-29
28882
IG CHAINS

IGKV2D-30
28881
IG CHAINS

IGKV3-20
28912
IG CHAINS

IGKV3D-20
28874
IG CHAINS

IGKV3D-7
28877
IG CHAINS

IGKV4-1
28908
IG CHAINS

IGKV5-2
28907
IG CHAINS

IGLC2
3538
IG CHAINS

IGLC7
28834
IG CHAINS

IGLJ6
28828
IG CHAINS

IGLV10-54
28772
IG CHAINS

IGLV1-36
28826
IG CHAINS

IGLV1-47
28822
IG CHAINS

IGLV2-11
28816
IG CHAINS

IGLV2-18
28814
IG CHAINS

IGLV2-23
28813
IG CHAINS

IGLV2-33
28811
IG CHAINS

IGLV2-8
28817
IG CHAINS

IGLV3-10
28803
IG CHAINS

IGLV3-12
28802
IG CHAINS

IGLV3-16
28799
IG CHAINS

IGLV3-21
28796
IG CHAINS

IGLV3-27
28791
IG CHAINS

IGLV3-32
28787
IG CHAINS

IGLV4-69
28784
IG CHAINS

IGLV5-37
28783
IG CHAINS

IGLV7-43
28776
IG CHAINS

IGLV8-61
28774
IG CHAINS

IGLV9-49
28773
IG CHAINS

IL18
3606
IL1 cytokines

IL1B
3553
IL1 cytokines

CASP1
834
Inflammasome

AIM2
9447
Inflammasome

CASP5
838
Inflammasome

CTSB
1508
Inflammasome

GSDMB
55876
Inflammasome

GSDMD
79792
Inflammasome

NAIP
4671
Inflammasome

NEK7
140609
Inflammasome

NLRC4
58484
Inflammasome

NLRP1
22861
Inflammasome

NLRP3
114548
Inflammasome

NOD2
64127
Inflammasome

P2RX7
5027
Inflammasome

PANX1
24145
Inflammasome

PYCARD
29108
Inflammasome

RIPK1
8737
Inflammasome

AZU1
566
LDG

CAMP
820
LDG

CEACAM6
4680
LDG

CEACAM8
1088
LDG

CTSG
1511
LDG

DEFA4
1669
LDG

ELANE
1991
LDG

LCN2
3934
LDG

LTF
4057
LDG

MPO
4353
LDG

OLFM4
10562
LDG

RNASE3
6037
LDG

HLA-DMA
3108
MHC II

HLA-DMB
3109
MHC II

HLA-DPA1
3113
MHC II

HLA-DPB1
3115
MHC II

HLA-DPB2
3116
MHC II

HLA-DQA1
3117
MHC II

HLA-DQA2
3118
MHC II

HLA-DQB1
3119
MHC II

HLA-DQB2
3120
MHC II

HLA-DRA
3122
MHC II

HLA-DRB1
3123
MHC II

HLA-DRB3
3125
MHC II

HLA-DRB4
3126
MHC II

HLA-DRB5
3127
MHC II

HLA-DRB6
3128
MHC II

C1QA
712
Mono Secreted

C1QB
713
Mono Secreted

C1QC
714
Mono Secreted

C1RL
51279
Mono Secreted

CCL2
6347
Mono Secreted

CCL8
6355
Mono Secreted

CXCL1
2919
Mono Secreted

CXCL2
2920
Mono Secreted

GRN
2896
Mono Secreted

IK
3550
Mono Secreted

IL18RAP
8807
Mono Secreted

IL1B
3553
Mono Secreted

IL1RN
3557
Mono Secreted

S100A8
6279
Mono Secreted

THBD
7056
Mono Secreted

TNF
7124
Mono Secreted

CXCL10
3627
Mono Secreted

CD14
929
Monocyte Cell Surface

CD300C
10871
Monocyte Cell Surface

CD33
945
Monocyte Cell Surface

CD68
968
Monocyte Cell Surface

CLEC12A
160364
Monocyte Cell Surface

CLEC4D
338339
Monocyte Cell Surface

CLEC4E
26253
Monocyte Cell Surface

FCGR1A
2209
Monocyte Cell Surface

FCGR1B
2210
Monocyte Cell Surface

FCGR3B
2215
Monocyte Cell Surface

LILRA5
353514
Monocyte Cell Surface

LILRA6
79168
Monocyte Cell Surface

LILRB2
10288
Monocyte Cell Surface

LILRB3
11025
Monocyte Cell Surface

OSCAR
126014
Monocyte Cell Surface

SEMA4A
64218
Monocyte Cell Surface

SIGLEC1
6614
Monocyte Cell Surface

C1QA
712
Monocytes

C1QB
713
Monocytes

C1QC
714
Monocytes

C1RL
51279
Monocytes

CCL2
6347
Monocytes

CCL8
6355
Monocytes

CD14
929
Monocytes

CD300C
10871
Monocytes

CD33
945
Monocytes

CD68
968
Monocytes

CLEC12A
160364
Monocytes

CLEC4D
338339
Monocytes

CLEC4E
26253
Monocytes

CXCL1
2919
Monocytes

CXCL2
2920
Monocytes

CXCR2
3579
Monocytes

FCGR1A
2209
Monocytes

FCGR1B
2210
Monocytes

FCGR1B
2215
Monocytes

GRN
2896
Monocytes

IK
3550
Monocytes

IL18RAP
8807
Monocytes

IL1B
3553
Monocytes

IL1RN
3557
Monocytes

LILRA5
353514
Monocytes

LILRA6
79168
Monocytes

LILRB2
10288
Monocytes

LILRB3
11025
Monocytes

OSCAR
126014
Monocytes

S100A8
6279
Monocytes

SEMA4A
64218
Monocytes

SIGLEC1
6614
Monocytes

THBD
7056
Monocytes

BST1
683
Monocytes

C1R
715
Monocytes

CD163
9332
Monocytes

CSF2
1437
Monocytes

FUT4
2526
Monocytes

MNDA
4332
Monocytes

MRC1
4360
Monocytes

KLRF1
51348
NK

NCAM1
4684
NK

NCR1
9437
NK

NCR3
259197
NK

SH2D1B
117157
NK

CLEC4C
170482
pDC

NRP1
8829
pDC

IGHV4-28
28400
Plasma Cells

IGHV4-34
28395
Plasma Cells

IGHD
3495
Plasma Cells

IGHG1
3500
Plasma Cells

IGHV2-5
28457
Plasma Cells

IGHV3-20
28445
Plasma Cells

IGHV3-23
28442
Plasma Cells

IGKC
3514
Plasma Cells

IGLV1-40
28825
Plasma Cells

IGLV3-1
28809
Plasma Cells

IGLV3-19
28797
Plasma Cells

IGLV3-25
28793
Plasma Cells

IGLV4-3
28786
Plasma Cells

IGLV4-60
28785
Plasma Cells

IGLV5-45
28781
Plasma Cells

IGLV6-57
28778
Plasma Cells

IGLVI-70
28763
Plasma Cells

C19orf10
56005
Plasma Cells

IGH
3492
Plasma Cells

IGHMBP2
3508
Plasma Cells

IGHV4-31
28396
Plasma Cells

IGK
50802
Plasma Cells

IGL
3535
Plasma Cells

IGLJ3
28831
Plasma Cells

IGLL1
3543
Plasma Cells

IGLV@
3546
Plasma Cells

IGLV1-44
28823
Plasma Cells

IGLV2-14
28815
Plasma Cells

IGLV2-5
28818
Plasma Cells

MZB1
51237
Plasma Cells

PRDM1
639
Plasma Cells

SDC1
6382
Plasma Cells

THEMIS2
9473
Plasma Cells

TNFRSF17
608
Plasma Cells

GP1BA
2811
Platelets

GP5
2814
Platelets

GP6
51206
Platelets

GP9
2815
Platelets

LY6G6D
58530
Platelets

MMRN1
22915
Platelets

PEAR1
375033
Platelets

PF4
5196
Platelets

PF4V1
5197
Platelets

PPBP
5473
Platelets

SLC35D3
340146
Platelets

RNU4ATAC
100151683
SNOR LOW Down

SNORA11
677799
SNOR LOW Down

SNORA16A
692073
SNOR LOW Down

SNORA23
677808
SNOR LOW Down

SNORA38B
100124536
SNOR LOW Down

SNORA73A
6080
SNOR LOW Down

SNORA73B
26768
SNOR LOW Down

FCGR1A
2209
SNOR LOW Up

CEACAM1
634
SNOR LOW Up

LGALS1
3956
SNOR LOW Up

SNORD24
26820
SNOR LOW Up

SNORD44
26806
SNOR LOW Up

SNORD47
26802
SNOR LOW Up

SNORD80
26774
SNOR LOW Up

CD8A
925
T Cells

CD8B
926
T Cells

TRDC
28526
T Cells

CCR3
1232
T Cells

CD226
10666
T Cells

CD247
919
T Cells

CD28
940
T Cells

CD3D
915
T Cells

CD3E
916
T Cells

CD3G
917
T Cells

CD4
920
T Cells

CD5
921
T Cells

ETS1
2113
T Cells

GATA3
2625
T Cells

GRAP2
9402
T Cells

LEF1
51176
T Cells

SH2D1A
4068
T Cells

TRAC
28755
T Cells

TRBC1
28639
T Cells

FOXP3
50943
T reg

IKZF2
22807
T reg

FAS LG
356
Tactivated

TAGAP
117289
Tactivated

CD40LG
959
Tactivated

CREM
1390
Tactivated

IL17A
3605
Tactivated

IL17F
112744
Tactivated

IL23R
149233
Tactivated

JAKMIP1
152789
Tactivated

KCNA3
3738
Tactivated

KCNN4
3783
Tactivated

P2RX5
5026
Tactivated

PRKCQ
5588
Tactivated

RELT
84957
Tactivated

RNF125
54941
Tactivated

SATB1
6304
Tactivated

TNFRSF4
7293
Tactivated

TNFRSF9
3604
Tactivated

TRAV10
28676
TCRA

TRAV1-1
28693
TCRA

TRAV1-2
28692
TCRA

TRAV12-1
28674
TCRA

TRAV12-2
28673
TCRA

TRAV12-3
28672
TCRA

TRAV13-1
28671
TCRA

TRAV13-2
28670
TCRA

TRAV14DV4
28669
TCRA

TRAV16
28667
TCRA

TRAV17
28666
TCRA

TRAV18
28665
TCRA

TRAV19
28664
TCRA

TRAV2
28691
TCRA

TRAV20
28663
TCRA

TRAV21
28662
TCRA

TRAV22
28661
TCRA

TRAV23DV6
28660
TCRA

TRAV24
28659
TCRA

TRAV25
28658
TCRA

TRAV26-1
28657
TCRA

TRAV26-2
28656
TCRA

TRAV27
28655
TCRA

TRAV29DV5
28653
TCRA

TRAV3
28690
TCRA

TRAV30
28652
TCRA

TRAV34
28648
TCRA

TRAV35
28647
TCRA

TRAV36DV7
28646
TCRA

TRAV38-1
28644
TCRA

TRAV38-
28643
TCRA

2DV8

TRAV39
28642
TCRA

TRAV4
28689
TCRA

TRAV40
28641
TCRA

TRAV41
28640
TCRA

TRAV5
28688
TCRA

TRAV7
28686
TCRA

TRAV8-1
28685
TCRA

TRAV8-2
28684
TCRA

TRAV8-3
28683
TCRA

TRAV8-4
28682
TCRA

TRAV8-6
28680
TCRA

TRAV8-7
28679
TCRA

TRAV9-1
28678
TCRA

TRAV9-2
28677
TCRA

TRAJ10
28745
TCRAJ

TRAJ11
28744
TCRAJ

TRAJ12
28743
TCRAJ

TRAJ13
28742
TCRAJ

TRAJ14
28741
TCRAJ

TRAJ15
28740
TCRAJ

TRAJ16
28739
TCRAJ

TRAJ17
28738
TCRAJ

TRAJ18
28737
TCRAJ

TRAJ19
28736
TCRAJ

TRAJ20
28735
TCRAJ

TRAJ21
28734
TCRAJ

TRAJ22
28733
TCRAJ

TRAJ23
28732
TCRAJ

TRAJ24
28731
TCRAJ

TRAJ25
28730
TCRAJ

TRAJ26
28729
TCRAJ

TRAJ27
28728
TCRAJ

TRAJ28
28727
TCRAJ

TRAJ29
28726
TCRAJ

TRAJ3
28752
TCRAJ

TRAJ30
28725
TCRAJ

TRAJ31
28724
TCRAJ

TRAJ32
28723
TCRAJ

TRAJ33
28722
TCRAJ

TRAJ34
28721
TCRAJ

TRAJ35
28720
TCRAJ

TRAJ36
28719
TCRAJ

TRAJ37
28718
TCRAJ

TRAJ38
28717
TCRAJ

TRAJ39
28716
TCRAJ

TRAJ4
28751
TCRAJ

TRAJ40
28715
TCRAJ

TRAJ41
28714
TCRAJ

TRAJ42
28713
TCRAJ

TRAJ43
28712
TCRAJ

TRAJ44
28711
TCRAJ

TRAJ45
28710
TCRAJ

TRAJ46
28709
TCRAJ

TRAJ47
28708
TCRAJ

TRAJ48
28707
TCRAJ

TRAJ49
28706
TCRAJ

TRAJ5
28750
TCRAJ

TRAJ50
28705
TCRAJ

TRAJ52
28703
TCRAJ

TRAJ53
28702
TCRAJ

TRAJ54
28701
TCRAJ

TRAJ56
28699
TCRAJ

TRAJ57
28698
TCRAJ

TRAJ58
28697
TCRAJ

TRAJ59
28696
TCRAJ

TRAJ6
28749
TCRAJ

TRAJ61
28694
TCRAJ

TRAJ7
28748
TCRAJ

TRAJ8
28747
TCRAJ

TRAJ9
28746
TCRAJ

TRBC2
28638
TCRB

TRBJ2-1
28629
TCRB

TRBJ2-2
28628
TCRB

TRBJ2-2P
28627
TCRB

TRBJ2-3
28626
TCRB

TRBJ2-4
28625
TCRB

TRBJ2-5
28624
TCRB

TRBJ2-6
28623
TCRB

TRBJ2-7
28622
TCRB

TRBV1
28621
TCRB

TRBV10-1
28585
TCRB

TRBV10-2
28584
TCRB

TRBV11-1
28582
TCRB

TRBV11-2
28581
TCRB

TRBV19
28568
TCRB

TRBV2
28620
TCRB

TRBV20-1
28567
TCRB

TRBV21-1
28566
TCRB

TRBV23-1
28564
TCRB

TRBV24-1
28563
TCRB

TRBV25-1
28562
TCRB

TRBV27
28560
TCRB

TRBV28
28559
TCRB

TRBV3-1
28619
TCRB

TRBV4-1
28617
TCRB

TRBV4-2
28616
TCRB

TRBV5-1
28614
TCRB

TRBV5-3
28612
TCRB

TRBV5-4
28611
TCRB

TRBV5-5
28610
TCRB

TRBV5-6
28609
TCRB

TRBV5-7
28608
TCRB

TRBV6-1
28606
TCRB

TRBV6-4
28603
TCRB

TRBV6-5
28602
TCRB

TRBV6-6
28601
TCRB

TRBV6-7
28600
TCRB

TRBV6-8
28599
TCRB

TRBV7-1
28597
TCRB

TRBV7-3
28595
TCRB

TRBV7-4
28594
TCRB

TRBV7-5
28593
TCRB

TRBV7-6
28592
TCRB

TRBV7-7
28591
TCRB

TRBV9
28586
TCRB

TRDC
28526
TCRD

TRDJ1
28522
TCRD

TRDJ2
28521
TCRD

TRDJ3
28520
TCRD

TRDJ4
28519
TCRD

TRDV1
28518
TCRD

TRDV2
28517
TCRD

TRDV3
28516
TCRD

TRGC2
6967
TCRG

TRGV1
6973
TCRG

TRGV10
6984
TCRG

TRGV11
6985
TCRG

TRGV2
6974
TCRG

TRGV3
6976
TCRG

TRGV4
6977
TCRG

TRGV5
6978
TCRG

TRGV7
6981
TCRG

TRGV8
6982
TCRG

TRGV9
6983
TCRG

BRCA1
672
TNF_Waddel Up

CASP1
834
TNF_Waddel Up

CXCL1
2919
TNF_Waddel Up

CXCL2
2920
TNF_Waddel Up

GBP1
2633
TNF_Waddel Up

GP1BA
2811
TNF_Waddel Up

IFI44
10561
TNF_Waddel Up

IL18
3606
TNF_Waddel Up

IL1B
3553
TNF_Waddel Up

IL1RN
3557
TNF_Waddel Up

MX1
4599
TNF_Waddel Up

NAMPT
10135
TNF_Waddel Up

NR3C1
2908
TNF_Waddel Up

OAS3
4940
TNF_Waddel Up

PATJ
10207
TNF_Waddel Up

SH3BP5
9467
TNF_Waddel Up

TAP2
6891
TNF_Waddel Up

TNF
7124
TNF_Waddel Up

TNFAIP3
7128
TNF_Waddel Up

TNFRSF11A
8792
TNF_Waddel Up

WT1
7490
TNF_Waddel Up

ACLY
47
TNF_Waddel Up

ACSL1
2180
TNF_Waddel Up

ADGRE2
30817
TNF_Waddel Up

AK3
50808
TNF_Waddel Up

AKAP10
11216
TNF_Waddel Up

AMPD3
272
TNF_Waddel Up

APOL3
80833
TNF_Waddel Up

ARID3A
1820
TNF_Waddel Up

ARSE
415
TNF_Waddel Up

ASAP1
50807
TNF_Waddel Up

B4GALT5
9334
TNF_Waddel Up

BCL2A1
597
TNF_Waddel Up

BHLHE41
79365
TNF_Waddel Up

BHMT
635
TNF_Waddel Up

BIRC3
330
TNF_Waddel Up

CALD1
800
TNF_Waddel Up

CASP10
843
TNF_Waddel Up

CCL15
6359
TNF_Waddel Up

CCL20
6364
TNF_Waddel Up

CCL23
6368
TNF_Waddel Up

CCL3L1
6349
TNF_Waddel Up

CD37
951
TNF_Waddel Up

CD38
952
TNF_Waddel Up

CD83
9308
TNF_Waddel Up

CDKN3
1033
TNF_Waddel Up

CKB
1152
TNF_Waddel Up

CR2
1380
TNF_Waddel Up

CTNND2
1501
TNF_Waddel Up

CXCL3
2921
TNF_Waddel Up

CXCL8
3576
TNF_Waddel Up

CYP27B1
1594
TNF_Waddel Up

DAB2
1601
TNF_Waddel Up

EBI3
10148
TNF_Waddel Up

EGR1
1958
TNF_Waddel Up

EGR2
1959
TNF_Waddel Up

EPB41
2035
TNF_Waddel Up

EREG
2069
TNF_Waddel Up

ETAA1
54465
TNF_Waddel Up

F3
2152
TNF_Waddel Up

FABP1
2168
TNF_Waddel Up

FBXL2
25827
TNF_Waddel Up

FCER2
2208
TNF_Waddel Up

FCGR2A
2212
TNF_Waddel Up

FLJ11129
54674
TNF_Waddel Up

FLNA
2316
TNF_Waddel Up

G0S2
50486
TNF_Waddel Up

GCH1
2643
TNF_Waddel Up

GJB2
2706
TNF_Waddel Up

GLS
2744
TNF_Waddel Up

GMIP
51291
TNF_Waddel Up

GRK3
157
TNF_Waddel Up

HCAR3
8843
TNF_Waddel Up

HHEX
3087
TNF_Waddel Up

HOMER2
9455
TNF_Waddel Up

HP
3240
TNF_Waddel Up

ICAM1
3383
TNF_Waddel Up

IDO1
3620
TNF_Waddel Up

IKBKG
8517
TNF_Waddel Up

IL16
3603
TNF_Waddel Up

IL1A
3552
TNF_Waddel Up

IL6
3569
TNF_Waddel Up

INHBA
3624
TNF_Waddel Up

INSIG1
3638
TNF_Waddel Up

ITGA6
3655
TNF_Waddel Up

KITLG
4254
TNF_Waddel Up

KLF1
10661
TNF_Waddel Up

KMO
8564
TNF_Waddel Up

LGALS3BP
3959
TNF_Waddel Up

MAP3K4
4216
TNF_Waddel Up

MARCKS
4082
TNF_Waddel Up

MGLL
11343
TNF_Waddel Up

MMP19
4327
TNF_Waddel Up

MN1
4330
TNF_Waddel Up

MRPS15
64960
TNF_Waddel Up

MSC
9242
TNF_Waddel Up

MTF1
4520
TNF_Waddel Up

NELL2
4753
TNF_Waddel Up

NFKB1
4790
TNF_Waddel Up

NFKB2
4791
TNF_Waddel Up

NFKBIA
4792
TNF_Waddel Up

NFKBIZ
64332
TNF_Waddel Up

NKX3-2
579
TNF_Waddel Up

PDE4DIP
9659
TNF_Waddel Up

PDPN
10630
TNF_Waddel Up

PIAS4
51588
TNF_Waddel Up

PLAUR
5329
TNF_Waddel Up

PTGES
9536
TNF_Waddel Up

PTGS2
5743
TNF_Waddel Up

RELB
5971
TNF_Waddel Up

RPGR
6103
TNF_Waddel Up

RPS9
6203
TNF_Waddel Up

SDC4
6385
TNF_Waddel Up

SERPIND1
3053
TNF_Waddel Up

SFRP1
6422
TNF_Waddel Up

SLAMF1
6504
TNF_Waddel Up

SLC30A4
7782
TNF_Waddel Up

SOD2
6648
TNF_Waddel Up

SPI1
6688
TNF_Waddel Up

SSPN
8082
TNF_Waddel Up

STAT4
6775
TNF_Waddel Up

TAF15
8148
TNF_Waddel Up

TBX3
6926
TNF_Waddel Up

TFF1
7031
TNF_Waddel Up

TNFAIP2
7127
TNF_Waddel Up

TRAF1
7185
TNF_Waddel Up

TSC22D1
8848
TNF_Waddel Up

TYROBP
7305
TNF_Waddel Up

UBE2C
11065
TNF_Waddel Up

VEGFA
7422
TNF_Waddel Up

B4GALT3
8703
Unfolded Protein

CALR
811
Unfolded Protein

CALU
813
Unfolded Protein

CANX
821
Unfolded Protein

CDS2
8760
Unfolded Protein

CHST12
55501
Unfolded Protein

CHST2
9435
Unfolded Protein

DERL1
79139
Unfolded Protein

DERL2
51009
Unfolded Protein

DNAJC3
5611
Unfolded Protein

EDEM2
55741
Unfolded Protein

EDEM3
80267
Unfolded Protein

EMC9
51016
Unfolded Protein

ERAP1
51752
Unfolded Protein

ERGIC2
51290
Unfolded Protein

ERO1L
30001
Unfolded Protein

EXT1
2131
Unfolded Protein

GALNT2
2590
Unfolded Protein

GOLT1B
51026
Unfolded Protein

HERPUD1
9709
Unfolded Protein

HYOU1
10525
Unfolded Protein

IER3IP1
51124
Unfolded Protein

IMPAD1
54928
Unfolded Protein

KDELC1
79070
Unfolded Protein

KDELR2
11014
Unfolded Protein

LMAN2
10960
Unfolded Protein

LPGAT1
9926
Unfolded Protein

MAN1A1
4121
Unfolded Protein

MANEA
79694
Unfolded Protein

MANF
7873
Unfolded Protein

NUCB2
4925
Unfolded Protein

PDIA4
9601
Unfolded Protein

PDIA6
10130
Unfolded Protein

PIGK
10026
Unfolded Protein

PPIB
5479
Unfolded Protein

SEC24D
9871
Unfolded Protein

SEC61G
23480
Unfolded Protein

SPCS3
60559
Unfolded Protein

SSR1
6745
Unfolded Protein

SSR3
6747
Unfolded Protein

TRAM1
23471
Unfolded Protein

TRAM2
9697
Unfolded Protein

UGGT1
56886
Unfolded Protein

XBP1
7494
Unfolded Protein

APP
351
NLRP3 Inflammasome

ATAT1
79969
NLRP3 Inflammasome

CARD8
22900
NLRP3 Inflammasome

CASP1
834
NLRP3 Inflammasome

CASP4
837
NLRP3 Inflammasome

CD36
948
NLRP3 Inflammasome

CPTP
80772
NLRP3 Inflammasome

DHX33
56919
NLRP3 Inflammasome

EIF2AK2
5610
NLRP3 Inflammasome

GBP5
115362
NLRP3 Inflammasome

GSDMD
79792
NLRP3 Inflammasome

HSP90AB1
3326
NLRP3 Inflammasome

MEFV
4210
NLRP3 Inflammasome

NFKB1
4790
NLRP3 Inflammasome

NFKB2
4791
NLRP3 Inflammasome

NLRC3
197358
NLRP3 Inflammasome

NLRP3
114548
NLRP3 Inflammasome

P2RX7
5027
NLRP3 Inflammasome

PANX1
24145
NLRP3 Inflammasome

PSTPIP1
9051
NLRP3 Inflammasome

PYCARD
29108
NLRP3 Inflammasome

PYDC2
152138
NLRP3 Inflammasome

RELA
5970
NLRP3 Inflammasome

SIRT2
22933
NLRP3 Inflammasome

SUGT1
10910
NLRP3 Inflammasome

TLR4
7099
NLRP3 Inflammasome

TLR6
10333
NLRP3 Inflammasome

TXN
7295
NLRP3 Inflammasome

TXNIP
10628
NLRP3 Inflammasome

USP50
373509
NLRP3 Inflammasome

C1QA
712
Classical Complement Pathway

C1QB
713
Classical Complement Pathway

C1QC
714
Classical Complement Pathway

C1R
715
Classical Complement Pathway

C1S
716
Classical Complement Pathway

C2
717
Classical Complement Pathway

C3
718
Classical Complement Pathway

C4A
720
Classical Complement Pathway

C4B
721
Classical Complement Pathway

C4B_2
100293534
Classical Complement Pathway

C5
727
Classical Complement Pathway

C6
729
Classical Complement Pathway

C7
730
Classical Complement Pathway

C8A
731
Classical Complement Pathway

C9
735
Classical Complement Pathway

C3
718
Alternative Complement Pathway

C5
727
Alternative Complement Pathway

C6
729
Alternative Complement Pathway

C7
730
Alternative Complement Pathway

C8A
731
Alternative Complement Pathway

C9
735
Alternative Complement Pathway

CFB
629
Alternative Complement Pathway

CFD
1675
Alternative Complement Pathway

CFH
3075
Alternative Complement Pathway

CFHR5
81494
Alternative Complement Pathway

CFP
5199
Alternative Complement Pathway

CR1
1378
Alternative Complement Pathway

GZMM
3004
Alternative Complement Pathway

MIR520B
574473
Alternative Complement Pathway

MIR520E
574461
Alternative Complement Pathway

VSIG4
11326
Alternative Complement Pathway

A2M
2
Lectin-Induced Complement Pathway

C2
717
Lectin-Induced Complement Pathway

C3
718
Lectin-Induced Complement Pathway

C4A
720
Lectin-Induced Complement Pathway

C4B
721
Lectin-Induced Complement Pathway

C4B_2
100293534
Lectin-Induced Complement Pathway

C5
727
Lectin-Induced Complement Pathway

C6
729
Lectin-Induced Complement Pathway

C7
730
Lectin-Induced Complement Pathway

C8A
731
Lectin-Induced Complement Pathway

C9
735
Lectin-Induced Complement Pathway

COLEC10
10584
Lectin-Induced Complement Pathway

COLEC11
78989
Lectin-Induced Complement Pathway

FCN1
2219
Lectin-Induced Complement Pathway

FCN2
2220
Lectin-Induced Complement Pathway

FCN3
8547
Lectin-Induced Complement Pathway

KRT1
3848
Lectin-Induced Complement Pathway

MASP1
5648
Lectin-Induced Complement Pathway

MASP2
10747
Lectin-Induced Complement Pathway

MBL2
4153
Lectin-Induced Complement Pathway

SERPING1
710
Lectin-Induced Complement Pathway

Table of NLRP3 Inflamm and Complement

geneSymbol
geneEntrezID
GeneSet

APP
351
NLRP3 Inflammasome

ATAT1
79969
NLRP3 Inflammasome

CARD8
22900
NLRP3 Inflammasome

CASP1
834
NLRP3 Inflammasome

CASP4
837
NLRP3 Inflammasome

CD36
948
NLRP3 Inflammasome

CPTP
80772
NLRP3 Inflammasome

DHX33
56919
NLRP3 Inflammasome

EIF2AK2
5610
NLRP3 Inflammasome

GBP5
115362
NLRP3 Inflammasome

GSDMD
79792
NLRP3 Inflammasome

HSP90AB1
3326
NLRP3 Inflammasome

MEFV
4210
NLRP3 Inflammasome

NFKB1
4790
NLRP3 Inflammasome

NFKB2
4791
NLRP3 Inflammasome

NLRC3
197358
NLRP3 Inflammasome

NLRP3
114548
NLRP3 Inflammasome

P2RX7
5027
NLRP3 Inflammasome

PANX1
24145
NLRP3 Inflammasome

PSTPIP1
9051
NLRP3 Inflammasome

PYCARD
29108
NLRP3 Inflammasome

PYDC2
152138
NLRP3 Inflammasome

RELA
5970
NLRP3 Inflammasome

SIRT2
22933
NLRP3 Inflammasome

SUGT1
10910
NLRP3 Inflammasome

TLR4
7099
NLRP3 Inflammasome

TLR6
10333
NLRP3 Inflammasome

TXN
7295
NLRP3 Inflammasome

TXNIP
10628
NLRP3 Inflammasome

USP50
373509
NLRP3 Inflammasome

C1QA
712
Classical Complement Pathway

CIQB
713
Classical Complement Pathway

C1QC
714
Classical Complement Pathway

C1R
715
Classical Complement Pathway

C1S
716
Classical Complement Pathway

C2
717
Classical Complement Pathway

C3
718
Classical Complement Pathway

C4A
720
Classical Complement Pathway

C4B
721
Classical Complement Pathway

C4B_2
100293534
Classical Complement Pathway

C5
727
Classical Complement Pathway

C6
729
Classical Complement Pathway

C7
730
Classical Complement Pathway

C8A
731
Classical Complement Pathway

C9
735
Classical Complement Pathway

C3
718
Alternative Complement Pathway

C5
727
Alternative Complement Pathway

C6
729
Alternative Complement Pathway

C7
730
Alternative Complement Pathway

C8A
731
Alternative Complement Pathway

C9
735
Alternative Complement Pathway

CFB
629
Alternative Complement Pathway

CFD
1675
Alternative Complement Pathway

CFH
3075
Alternative Complement Pathway

CFHR5
81494
Alternative Complement Pathway

CFP
5199
Alternative Complement Pathway

CR1
1378
Alternative Complement Pathway

GZMM
3004
Alternative Complement Pathway

MIR520B
574473
Alternative Complement Pathway

MIR520E
574461
Alternative Complement Pathway

VSIG4
11326
Alternative Complement Pathway

A2M
2
Lectin-Induced Complement Pathway

C2
717
Lectin-Induced Complement Pathway

C3
718
Lectin-Induced Complement Pathway

C4A
720
Lectin-Induced Complement Pathway

C4B
721
Lectin-Induced Complement Pathway

C4B_2
100293534
Lectin-Induced Complement Pathway

C5
727
Lectin-Induced Complement Pathway

C6
729
Lectin-Induced Complement Pathway

C7
730
Lectin-Induced Complement Pathway

C8A
731
Lectin-Induced Complement Pathway

C9
735
Lectin-Induced Complement Pathway

COLEC10
10584
Lectin-Induced Complement Pathway

COLEC11
78989
Lectin-Induced Complement Pathway

FCN1
2219
Lectin-Induced Complement Pathway

FCN2
2220
Lectin-Induced Complement Pathway

FCN3
8547
Lectin-Induced Complement Pathway

KRT1
3848
Lectin-Induced Complement Pathway

MASP1
5648
Lectin-Induced Complement Pathway

MASP2
10747
Lectin-Induced Complement Pathway

MBL2
4153
Lectin-Induced Complement Pathway

SERPING1
710
Lectin-Induced Complement Pathway

Table of IL6-IL1

geneSymbol
geneEntrezID
GeneSet

IL1A
3552
Proinflammatory IL-1 Family

IL1B
3553
Proinflammatory IL-1 Family

IL18
3606
Proinflammatory IL-1 Family

IL36A
27179
Proinflammatory IL-1 Family

IL36B
27177
Proinflammatory IL-1 Family

IL36G
56300
Proinflammatory IL-1 Family

IL33
90865
Proinflammatory IL-1 Family

IL1R1
3554
Proinflammatory IL-1 Family

IL1RAP
3556
Proinflammatory IL-1 Family

IL18R1
8809
Proinflammatory IL-1 Family

IL18RAP
8807
Proinflammatory IL-1 Family

IL6
3569
IL-6R Complex

IL6R
3570
IL-6R Complex

IL6ST
3572
IL-6R Complex

Table of M1 and M2 Macrophages

geneSymbol
geneEntrezID
GeneSet

AK3
50808
M1

APOL1
8542
M1

APOL2
23780
M1

APOL3
80833
M1

APOL6
80830
M1

ATF3
467
M1

BCL2A1
597
M1

BIRC3
330
M1

CCL15
6359
M1

CCL19
6363
M1

CCL20
6364
M1

CCL5
6352
M1

CCR7
1236
M1

CHI3L2
1117
M1

CXCL10
3627
M1

CXCL11
6373
M1

CXCL9
4283
M1

EDN1
1906
M1

FAS
355
M1

GADD45G
10912
M1

HESX1
8820
M1

HSD11B1
3290
M1

IDO1
3620
M1

IGFBP4
3487
M1

IL12B
3593
M1

IL15
3600
M1

IL15RA
3601
M1

IL2RA
3559
M1

IL6
3569
M1

IL7R
3575
M1

INHBA
3624
M1

IRF1
3659
M1

IRF7
3665
M1

NAMPT
10135
M1

OAS2
4939
M1

OASL
8638
M1

PDGFA
5154
M1

PFKFB3
5209
M1

PFKP
5214
M1

PLA1A
51365
M1

PSMA2
5683
M1

PSMB9
5698
M1

PSME2
5721
M1

PTX3
5806
M1

SCO2
9997
M1

SLC2A6
11182
M1

SLC31A2
1318
M1

SLC7A5
8140
M1

SLCO5A1
81796
M1

SPHK1
8877
M1

TNF
7124
M1

TNFSF10
8743
M1

VCAN
1462
M1

XAF1
54739
M1

ADK
132
M2

ALOX15
246
M2

CA2
760
M2

CCL13
6357
M2

CCL18
6362
M2

CCL23
6368
M2

CD209
30835
M2

CD36
948
M2

CERK
64781
M2

CHN2
1124
M2

CLEC4F
165530
M2

CLEC7A
64581
M2

CTSC
1075
M2

CXCR4
7852
M2

DLC1
10395
M2

EGR2
1959
M2

FGL2
10875
M2

FN1
2335
M2

GAS7
8522
M2

HEXB
3074
M2

HNMT
3176
M2

HRH1
3269
M2

HS3ST1
9957
M2

HS3ST2
9956
M2

IGF1
3479
M2

LIPA
3988
M2

LPAR6
10161
M2

LTA4H
4048
M2

MAF
4094
M2

MRC1
4360
M2

MS4A4A
51338
M2

MS4A6A
64231
M2

MSR1
4481
M2

P2RY13
53829
M2

P2RY14
9934
M2

SELENOP
6414
M2

SLC38A6
145389
M2

SLC4A7
9497
M2

SLCO2B1
11309
M2

TGFBI
7045
M2

TGFBR2
7048
M2

TLR5
7100
M2

TPST2
8459
M2

Table of Kotliarov et al. CD 40

geneSymbol
geneEntrezID
GeneSet

BUB1B
701
CD40act

CCL22
6367
CD40act

CD58
965
CD40act

DBI
1622
CD40act

DUSP4
1846
CD40act

FABP5
2171
CD40act

FDPS
2224
CD40act

FEN1
2237
CD40act

GAPDH
2597
CD40act

GARS
2617
CD40act

GRHPR
9380
CD40act

H2AFX
3014
CD40act

H2AFZ
3015
CD40act

HMGB2
3148
CD40act

HMMR
3161
CD40act

HPRT1
3251
CD40act

IMPDH2
3615
CD40act

LDHA
3939
CD40act

LDHB
3945
CD40act

LMNB1
4001
CD40act

LPXN
9404
CD40act

MCM2
4171
CD40act

MCM3
4172
CD40act

MCM6
4175
CD40act

MSH6
2956
CD40act

MTHFD2
10797
CD40act

MYBL2
4605
CD40act

NDC80
10403
CD40act

NME1
4830
CD40act

PAICS
10606
CD40act

PCNA
5111
CD40act

PKM
5315
CD40act

PRDX3
10935
CD40act

RFTN1
23180
CD40act

RGS10
6001
CD40act

SLAMF1
6504
CD40act

TK1
7083
CD40act

TOP2A
7153
CD40act

TPX2
22974
CD40act

TRAF1
7185
CD40act

TUBA1B
10376
CD40act

TXN
7295
CD40act

TYMS
7298
CD40act

UBE2S
27338
CD40act

VDAC1
7416
CD40act

WEE1
7465
CD40act

WSB2
55884
CD40act

ZWINT
11130
CD40act

Table of Interferons (IFN)

geneSymbol
geneEntrezID
GeneSet

ACSL1
2180
IFNA2 Signature

ADAR
103
IFNA2 Signature

AGT
183
IFNA2 Signature

AIM2
9447
IFNA2 Signature

AKAP2
11217
IFNA2 Signature

APOBEC3B
9582
IFNA2 Signature

APOBEC3G
60489
IFNA2 Signature

APOL3
80833
IFNA2 Signature

ATF3
467
IFNA2 Signature

ATF5
22809
IFNA2 Signature

BAG1
573
IFNA2 Signature

BARD1
580
IFNA2 Signature

BCL7B
9275
IFNA2 Signature

BLVRA
644
IFNA2 Signature

BRCA1
672
IFNA2 Signature

BRCA2
675
IFNA2 Signature

BST2
684
IFNA2 Signature

BUB1
699
IFNA2 Signature

C2
717
IFNA2 Signature

CACNA1A
773
IFNA2 Signature

CAD
790
IFNA2 Signature

CAMK2A
815
IFNA2 Signature

CASP1
834
IFNA2 Signature

CASP10
843
IFNA2 Signature

CASP5
838
IFNA2 Signature

CBR1
873
IFNA2 Signature

CBWD1
55871
IFNA2 Signature

CCL13
6357
IFNA2 Signature

CCL7
6354
IFNA2 Signature

CCL8
6355
IFNA2 Signature

CCNA1
8900
IFNA2 Signature

CCND2
894
IFNA2 Signature

CD2AP
23607
IFNA2 Signature

CD38
952
IFNA2 Signature

CD4
920
IFNA2 Signature

CD69
969
IFNA2 Signature

CDC42EP1
11135
IFNA2 Signature

CDK4
1019
IFNA2 Signature

CDKN1A
1026
IFNA2 Signature

CFB
629
IFNA2 Signature

CH25H
9023
IFNA2 Signature

CHKA
1119
IFNA2 Signature

CNTN6
27255
IFNA2 Signature

COL3A1
1281
IFNA2 Signature

CTSL
1514
IFNA2 Signature

CXCL10
3627
IFNA2 Signature

CXCL11
6373
IFNA2 Signature

CXCL9
4283
IFNA2 Signature

CXCR2
3579
IFNA2 Signature

CYP2J2
1573
IFNA2 Signature

DAB2
1601
IFNA2 Signature

DEFB1
1672
IFNA2 Signature

DLL1
28514
IFNA2 Signature

DSC2
1824
IFNA2 Signature

DUSP5
1847
IFNA2 Signature

DUSP7
1849
IFNA2 Signature

DYNLT1
6993
IFNA2 Signature

DYSF
8291
IFNA2 Signature

ECE1
1889
IFNA2 Signature

EDN1
1906
IFNA2 Signature

EIF2AK2
5610
IFNA2 Signature

EIF2B1
1967
IFNA2 Signature

EIF4ENIF1
56478
IFNA2 Signature

ENPP2
5168
IFNA2 Signature

EPB41
2035
IFNA2 Signature

ETV4
2118
IFNA2 Signature

F8
2157
IFNA2 Signature

FAF1
11124
IFNA2 Signature

FAS
355
IFNA2 Signature

FGF1
2246
IFNA2 Signature

FLNA
2316
IFNA2 Signature

FOXO1
2308
IFNA2 Signature

FTL
2512
IFNA2 Signature

FUT4
2526
IFNA2 Signature

GADD45B
4616
IFNA2 Signature

GBAP1
2630
IFNA2 Signature

GBP1
2633
IFNA2 Signature

GBP2
2634
IFNA2 Signature

GCH1
2643
IFNA2 Signature

GCNT1
2650
IFNA2 Signature

GLB1
2720
IFNA2 Signature

GLS
2744
IFNA2 Signature

GMPR
2766
IFNA2 Signature

GPR161
23432
IFNA2 Signature

GUK1
2987
IFNA2 Signature

HBG2
3048
IFNA2 Signature

HCAR3
8843
IFNA2 Signature

HIST2H2AA3
8337
IFNA2 Signature

HLA-DOA
3111
IFNA2 Signature

HLA-DRB5
3127
IFNA2 Signature

HS6ST1
9394
IFNA2 Signature

HSP90AA1
3320
IFNA2 Signature

IDO1
3620
IFNA2 Signature

IFI16
3428
IFNA2 Signature

IFI27
3429
IFNA2 Signature

IFI35
3430
IFNA2 Signature

IFI44
10561
IFNA2 Signature

IFI44L
10964
IFNA2 Signature

IFI6
2537
IFNA2 Signature

IFIT1
3434
IFNA2 Signature

IFIT5
24138
IFNA2 Signature

IFITM1
8519
IFNA2 Signature

IFITM2
10581
IFNA2 Signature

IFITM3
10410
IFNA2 Signature

IFNG
3458
IFNA2 Signature

IFRD1
3475
IFNA2 Signature

IGL
3535
IFNA2 Signature

IKBKG
8517
IFNA2 Signature

IL15
3600
IFNA2 Signature

IL15RA
3601
IFNA2 Signature

IL1RN
3557
IFNA2 Signature

IL6
3569
IFNA2 Signature

INPPL1
3636
IFNA2 Signature

IRF2
3660
IFNA2 Signature

IRF7
3665
IFNA2 Signature

ISG15
9636
IFNA2 Signature

ISG20
3669
IFNA2 Signature

ITIH2
3698
IFNA2 Signature

JAK2
3717
IFNA2 Signature

JUP
3728
IFNA2 Signature

KCNA3
3738
IFNA2 Signature

KDELR2
11014
IFNA2 Signature

KIF20B
9585
IFNA2 Signature

KLF6
1316
IFNA2 Signature

KPNB1
3837
IFNA2 Signature

KRT8
3856
IFNA2 Signature

LAG3
3902
IFNA2 Signature

LAMP3
27074
IFNA2 Signature

LAP3
51056
IFNA2 Signature

LEPR
3953
IFNA2 Signature

LGALS2
3957
IFNA2 Signature

LGALS3BP
3959
IFNA2 Signature

LGALS9
3965
IFNA2 Signature

LGMN
5641
IFNA2 Signature

LMNB1
4001
IFNA2 Signature

LMO2
4005
IFNA2 Signature

LY6E
4061
IFNA2 Signature

MAP2K5
5607
IFNA2 Signature

MCL1
4170
IFNA2 Signature

MED1
5469
IFNA2 Signature

MGLL
11343
IFNA2 Signature

MMP16
4325
IFNA2 Signature

MNDA
4332
IFNA2 Signature

MRPS15
64960
IFNA2 Signature

MSR1
4481
IFNA2 Signature

MX1
4599
IFNA2 Signature

MX2
4600
IFNA2 Signature

MYD88
4615
IFNA2 Signature

NAMPT
10135
IFNA2 Signature

NFE2L3
9603
IFNA2 Signature

NKTR
4820
IFNA2 Signature

NMI
9111
IFNA2 Signature

NR3C1
2908
IFNA2 Signature

NUB1
51667
IFNA2 Signature

NUPR1
26471
IFNA2 Signature

OAS1
4938
IFNA2 Signature

OAS2
4939
IFNA2 Signature

OAS3
4940
IFNA2 Signature

OSBPL1A
114876
IFNA2 Signature

PATJ
10207
IFNA2 Signature

PDGFB
5155
IFNA2 Signature

PDGFRL
5157
IFNA2 Signature

PGGT1B
5229
IFNA2 Signature

PKD2
5311
IFNA2 Signature

PLSCR1
5359
IFNA2 Signature

PMAIP1
5366
IFNA2 Signature

PML
5371
IFNA2 Signature

PRKRA
8575
IFNA2 Signature

PSMB9
5698
IFNA2 Signature

PTCH1
5727
IFNA2 Signature

RBCK1
10616
IFNA2 Signature

RET
5979
IFNA2 Signature

RGS1
5996
IFNA2 Signature

RGS6
9628
IFNA2 Signature

RPS9
6203
IFNA2 Signature

RTP4
64108
IFNA2 Signature

SAT1
6303
IFNA2 Signature

SCARB2
950
IFNA2 Signature

SERPING1
710
IFNA2 Signature

SIT1
27240
IFNA2 Signature

SLAMF1
6504
IFNA2 Signature

SOCS1
8651
IFNA2 Signature

SP100
6672
IFNA2 Signature

SP110
3431
IFNA2 Signature

SP140
11262
IFNA2 Signature

SPIB
6689
IFNA2 Signature

ST3GAL5
8869
IFNA2 Signature

STAP1
26228
IFNA2 Signature

STAT1
6772
IFNA2 Signature

STAT2
6773
IFNA2 Signature

STX11
8676
IFNA2 Signature

SUPT3H
8464
IFNA2 Signature

SYN2
6854
IFNA2 Signature

TAF5L
27097
IFNA2 Signature

TAP1
6890
IFNA2 Signature

TAP2
6891
IFNA2 Signature

TARBP1
6894
IFNA2 Signature

TCN2
6948
IFNA2 Signature

TFDP2
7029
IFNA2 Signature

TGM1
7051
IFNA2 Signature

TLR3
7098
IFNA2 Signature

TLR7
51284
IFNA2 Signature

TNFRSF11A
8792
IFNA2 Signature

TNFSF10
8743
IFNA2 Signature

TNFSF6
356
IFNA2 Signature

TNK2
10188
IFNA2 Signature

TOR1B
27348
IFNA2 Signature

TRA2B
6434
IFNA2 Signature

TRD
6964
IFNA2 Signature

TRIM21
6737
IFNA2 Signature

TRIM22
10346
IFNA2 Signature

TRIM26
7726
IFNA2 Signature

TRIM34
53840
IFNA2 Signature

TRIM38
10475
IFNA2 Signature

UBA7
7318
IFNA2 Signature

UBE2L6
9246
IFNA2 Signature

UBE2S
27338
IFNA2 Signature

UBE3A
7337
IFNA2 Signature

UNC93B1
81622
IFNA2 Signature

USP18
11274
IFNA2 Signature

VAMP5
10791
IFNA2 Signature

WARS
7453
IFNA2 Signature

WT1
7490
IFNA2 Signature

XAF1
54739
IFNA2 Signature

ACKR3
57007
IFNB1 ALTERNATIVE

PW Increased transcripts

ACOD1
730249
IFNB1 ALTERNATIVE

PW Increased transcripts

ADORA2B
136
IFNB1 ALTERNATIVE

PW Increased transcripts

AEN
64782
IFNB1 ALTERNATIVE

PW Increased transcripts

AMBP
259
IFNB1 ALTERNATIVE

PW Increased transcripts

ARG1
383
IFNB1 ALTERNATIVE

PW Increased transcripts

ARG2
384
IFNB1 ALTERNATIVE

PW Increased transcripts

ARHGAP31
57514
IFNB1 ALTERNATIVE

PW Increased transcripts

ASPA
443
IFNB1 ALTERNATIVE

PW Increased transcripts

B4GALT5
9334
IFNB1 ALTERNATIVE

PW Increased transcripts

BCL3
602
IFNB1 ALTERNATIVE

PW Increased transcripts

BYSL
705
IFNB1 ALTERNATIVE

PW Increased transcripts

CA13
377677
IFNB1 ALTERNATIVE

PW Increased transcripts

CAMKK2
10645
IFNB1 ALTERNATIVE

PW Increased transcripts

CCL2
6347
IFNB1 ALTERNATIVE

PW Increased transcripts

CCL3L3
6349
IFNB1 ALTERNATIVE

PW Increased transcripts

CCL4
6351
IFNB1 ALTERNATIVE

PW Increased transcripts

CCL7
6354
IFNB1 ALTERNATIVE

PW Increased transcripts

CCRL2
9034
IFNB1 ALTERNATIVE

PW Increased transcripts

CD14
929
IFNB1 ALTERNATIVE

PW Increased transcripts

CD207
50489
IFNB1 ALTERNATIVE

PW Increased transcripts

CD86
942
IFNB1 ALTERNATIVE

PW Increased transcripts

CDC42EP2
10435
IFNB1 ALTERNATIVE

PW Increased transcripts

CDKN1A
1026
IFNB1 ALTERNATIVE

PW Increased transcripts

CDR2
1039
IFNB1 ALTERNATIVE

PW Increased transcripts

CLEC4E
26253
IFNB1 ALTERNATIVE

PW Increased transcripts

CLEC6A
93978
IFNB1 ALTERNATIVE

PW Increased transcripts

COQ10B
80219
IFNB1 ALTERNATIVE

PW Increased transcripts

CRYAA
1409
IFNB1 ALTERNATIVE

PW Increased transcripts

CSTA
1475
IFNB1 ALTERNATIVE

PW Increased transcripts

CTPS1
1503
IFNB1 ALTERNATIVE

PW Increased transcripts

CXCL2
2920
IFNB1 ALTERNATIVE

PW Increased transcripts

CXCL3
2921
IFNB1 ALTERNATIVE

PW Increased transcripts

DNMT3L
29947
IFNB1 ALTERNATIVE

PW Increased transcripts

DOT1L
84444
IFNB1 ALTERNATIVE

PW Increased transcripts

DRAM1
55332
IFNB1 ALTERNATIVE

PW Increased transcripts

DUSP16
80824
IFNB1 ALTERNATIVE

PW Increased transcripts

EEF1E1
9521
IFNB1 ALTERNATIVE

PW Increased transcripts

EPHA4
2043
IFNB1 ALTERNATIVE

PW Increased transcripts

ETS2
2114
IFNB1 ALTERNATIVE

PW Increased transcripts

EXOC3L4
91828
IFNB1 ALTERNATIVE

PW Increased transcripts

F3
2152
IFNB1 ALTERNATIVE

PW Increased transcripts

FAM20C
56975
IFNB1 ALTERNATIVE

PW Increased transcripts

FCRL5
83416
IFNB1 ALTERNATIVE

PW Increased transcripts

FFAR2
2867
IFNB1 ALTERNATIVE

PW Increased transcripts

FMNL2
114793
IFNB1 ALTERNATIVE

PW Increased transcripts

FPR2
2358
IFNB1 ALTERNATIVE

PW Increased transcripts

GFPT1
2673
IFNB1 ALTERNATIVE

PW Increased transcripts

Gk
2710
IFNB1 ALTERNATIVE

PW Increased transcripts

GPR84
53831
IFNB1 ALTERNATIVE

PW Increased transcripts

GRWD1
83743
IFNB1 ALTERNATIVE

PW Increased transcripts

HBEGF
1839
IFNB1 ALTERNATIVE

PW Increased transcripts

HCAR2
338442
IFNB1 ALTERNATIVE

PW Increased transcripts

HEATR1
55127
IFNB1 ALTERNATIVE

PW Increased transcripts

HIVEP3
59269
IFNB1 ALTERNATIVE

PW Increased transcripts

HSPA1A
3303
IFNB1 ALTERNATIVE

PW Increased transcripts

HSPA1B
3304
IFNB1 ALTERNATIVE

PW Increased transcripts

ICAM1
3383
IFNB1 ALTERNATIVE

PW Increased transcripts

ID1
3397
IFNB1 ALTERNATIVE

PW Increased transcripts

IER3
8870
IFNB1 ALTERNATIVE

PW Increased transcripts

IFI16
3428
IFNB1 ALTERNATIVE

PW Increased transcripts

IKBKE
9641
IFNB1 ALTERNATIVE

PW Increased transcripts

IL1A
3552
IFNB1 ALTERNATIVE

PW Increased transcripts

IL1B
3553
IFNB1 ALTERNATIVE

PW Increased transcripts

IL1RN
3557
IFNB1 ALTERNATIVE

PW Increased transcripts

IL6
3569
IFNB1 ALTERNATIVE

PW Increased transcripts

IRAK3
11213
IFNB1 ALTERNATIVE

PW Increased transcripts

ITGA5
3678
IFNB1 ALTERNATIVE

PW Increased transcripts

ITGAX
3687
IFNB1 ALTERNATIVE

PW Increased transcripts

KPNA2
3838
IFNB1 ALTERNATIVE

PW Increased transcripts

MAFF
23764
IFNB1 ALTERNATIVE

PW Increased transcripts

MARCKSL1
65108
IFNB1 ALTERNATIVE

PW Increased transcripts

MARCO
8685
IFNB1 ALTERNATIVE

PW Increased transcripts

MEFV
4210
IFNB1 ALTERNATIVE

PW Increased transcripts

MMP14
4323
IFNB1 ALTERNATIVE

PW Increased transcripts

MT1A
4489
IFNB1 ALTERNATIVE

PW Increased transcripts

MT2A
4502
IFNB1 ALTERNATIVE

PW Increased transcripts

MYBPC2
4606
IFNB1 ALTERNATIVE

PW Increased transcripts

NAB2
4665
IFNB1 ALTERNATIVE

PW Increased transcripts

NOCT
25819
IFNB1 ALTERNATIVE

PW Increased transcripts

NOP16
51491
IFNB1 ALTERNATIVE

PW Increased transcripts

NOP2
4839
IFNB1 ALTERNATIVE

PW Increased transcripts

NR1H3
10062
IFNB1 ALTERNATIVE

PW Increased transcripts

NR4A1
3164
IFNB1 ALTERNATIVE

PW Increased transcripts

OLR1
4973
IFNB1 ALTERNATIVE

PW Increased transcripts

OSM
5008
IFNB1 ALTERNATIVE

PW Increased transcripts

PDIA6
10130
IFNB1 ALTERNATIVE

PW Increased transcripts

PHLDA1
22822
IFNB1 ALTERNATIVE

PW Increased transcripts

PHLDB1
23187
IFNB1 ALTERNATIVE

PW Increased transcripts

PIM1
5292
IFNB1 ALTERNATIVE

PW Increased transcripts

POGK
57645
IFNB1 ALTERNATIVE

PW Increased transcripts

PPRC1
23082
IFNB1 ALTERNATIVE

PW Increased transcripts

PROK2
60675
IFNB1 ALTERNATIVE

PW Increased transcripts

PTGES
9536
IFNB1 ALTERNATIVE

PW Increased transcripts

PTGIR
5739
IFNB1 ALTERNATIVE

PW Increased transcripts

PVR
5817
IFNB1 ALTERNATIVE

PW Increased transcripts

RAB20
55647
IFNB1 ALTERNATIVE

PW Increased transcripts

RAI14
26064
IFNB1 ALTERNATIVE

PW Increased transcripts

RELB
5971
IFNB1 ALTERNATIVE

PW Increased transcripts

RND1
27289
IFNB1 ALTERNATIVE

PW Increased transcripts

RRP12
23223
IFNB1 ALTERNATIVE

PW Increased transcripts

RRS1
23212
IFNB1 ALTERNATIVE

PW Increased transcripts

SAA1
6288
IFNB1 ALTERNATIVE

PW Increased transcripts

SCAMP1
9522
IFNB1 ALTERNATIVE

PW Increased transcripts

SDC4
6385
IFNB1 ALTERNATIVE

PW Increased transcripts

SERPINB2
5055
IFNB1 ALTERNATIVE

PW Increased transcripts

SERPINE1
5054
IFNB1 ALTERNATIVE

PW Increased transcripts

SHMT1
6470
IFNB1 ALTERNATIVE

PW Increased transcripts

SLAMF8
56833
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC12A4
6560
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC15A3
51296
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC16A10
117247
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC20A1
6574
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC25A25
114789
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC25A33
84275
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC2A6
11182
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC39A14
23516
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC7A2
6542
IFNB1 ALTERNATIVE

PW Increased transcripts

SLC7A5
8140
IFNB1 ALTERNATIVE

PW Increased transcripts

SNX18
112574
IFNB1 ALTERNATIVE

PW Increased transcripts

SOCS3
9021
IFNB1 ALTERNATIVE

PW Increased transcripts

SOD2
6648
IFNB1 ALTERNATIVE

PW Increased transcripts

SUSD6
9766
IFNB1 ALTERNATIVE

PW Increased transcripts

TFEC
22797
IFNB1 ALTERNATIVE

PW Increased transcripts

TFRC
7037
IFNB1 ALTERNATIVE

PW Increased transcripts

TGM2
7052
IFNB1 ALTERNATIVE

PW Increased transcripts

TIMM8A
1678
IFNB1 ALTERNATIVE

PW Increased transcripts

TLNRD1
59274
IFNB1 ALTERNATIVE

PW Increased transcripts

TLR2
7097
IFNB1 ALTERNATIVE

PW Increased transcripts

TMA16
55319
IFNB1 ALTERNATIVE

PW Increased transcripts

TNF
7124
IFNB1 ALTERNATIVE

PW Increased transcripts

TNFAIP2
7127
IFNB1 ALTERNATIVE

PW Increased transcripts

TNFAIP3
7128
IFNB1 ALTERNATIVE

PW Increased transcripts

TNFSF14
8740
IFNB1 ALTERNATIVE

PW Increased transcripts

TREM1
54210
IFNB1 ALTERNATIVE

PW Increased transcripts

TREML4
285852
IFNB1 ALTERNATIVE

PW Increased transcripts

TRIM13
10206
IFNB1 ALTERNATIVE

PW Increased transcripts

TRMT61A
115708
IFNB1 ALTERNATIVE

PW Increased transcripts

TXNRD1
7296
IFNB1 ALTERNATIVE

PW Increased transcripts

URB2
9816
IFNB1 ALTERNATIVE

PW Increased transcripts

ZNF503
84858
IFNB1 ALTERNATIVE

PW Increased transcripts

ACLY
47
IFNB1 Signature

ACSL1
2180
IFNB1 Signature

ADAM19
8728
IFNB1 Signature

ADAP2
55803
IFNB1 Signature

ADAR
103
IFNB1 Signature

ADGRE2
30817
IFNB1 Signature

ADM
133
IFNB1 Signature

AFF3
3899
IFNB1 Signature

AGT
183
IFNB1 Signature

AIM2
9447
IFNB1 Signature

AKAP10
11216
IFNB1 Signature

AKAP2
11217
IFNB1 Signature

ALOX12
239
IFNB1 Signature

ALOX5
240
IFNB1 Signature

ANXA4
307
IFNB1 Signature

APOBEC3B
9582
IFNB1 Signature

APOBEC3G
60489
IFNB1 Signature

APOL3
80833
IFNB1 Signature

ATF3
467
IFNB1 Signature

ATF5
22809
IFNB1 Signature

ATM
472
IFNB1 Signature

ATP13A1
57130
IFNB1 Signature

B4GAT1
11041
IFNB1 Signature

BAG1
573
IFNB1 Signature

BAK1
578
IFNB1 Signature

BARD1
580
IFNB1 Signature

BCL11A
53335
IFNB1 Signature

BCL7B
9275
IFNB1 Signature

BGN
633
IFNB1 Signature

BLNK
29760
IFNB1 Signature

BLVRA
644
IFNB1 Signature

BLZF1
8548
IFNB1 Signature

BRCA1
672
IFNB1 Signature

BRCA2
675
IFNB1 Signature

BST2
684
IFNB1 Signature

BUB1
699
IFNB1 Signature

C3AR1
719
IFNB1 Signature

CACNA1A
773
IFNB1 Signature

CAD
790
IFNB1 Signature

CALD1
800
IFNB1 Signature

CAMK2A
815
IFNB1 Signature

CAPN2
824
IFNB1 Signature

CASP1
834
IFNB1 Signature

CASP10
843
IFNB1 Signature

CASP5
838
IFNB1 Signature

CBR1
873
IFNB1 Signature

CBWD1
55871
IFNB1 Signature

CCL13
6357
IFNB1 Signature

CCL3L1
6349
IFNB1 Signature

CCL4
6351
IFNB1 Signature

CCL7
6354
IFNB1 Signature

CCL8
6355
IFNB1 Signature

CCNA1
8900
IFNB1 Signature

CCND2
894
IFNB1 Signature

CCR1
1230
IFNB1 Signature

CCR5
1234
IFNB1 Signature

CCRL2
9034
IFNB1 Signature

CD163
9332
IFNB1 Signature

CD164
8763
IFNB1 Signature

CD2AP
23607
IFNB1 Signature

CD38
952
IFNB1 Signature

CD4
920
IFNB1 Signature

CD59
966
IFNB1 Signature

CD69
969
IFNB1 Signature

CD72
971
IFNB1 Signature

CD86
942
IFNB1 Signature

CDK17
5128
IFNB1 Signature

CDKN1A
1026
IFNB1 Signature

CENPA
1058
IFNB1 Signature

CENPE
1062
IFNB1 Signature

CFB
629
IFNB1 Signature

CFLAR
8837
IFNB1 Signature

CH25H
9023
IFNB1 Signature

CHI3L2
1117
IFNB1 Signature

CHKA
1119
IFNB1 Signature

CISH
1154
IFNB1 Signature

CKB
1152
IFNB1 Signature

CMAHP
8418
IFNB1 Signature

CNTN6
27255
IFNB1 Signature

CNTRL
11064
IFNB1 Signature

COL3A1
1281
IFNB1 Signature

COX17
10063
IFNB1 Signature

CSF2RB
1439
IFNB1 Signature

CTSL
1514
IFNB1 Signature

CXCL10
3627
IFNB1 Signature

CXCL11
6373
IFNB1 Signature

CXCL2
2920
IFNB1 Signature

CXCL9
4283
IFNB1 Signature

CXCR2
3579
IFNB1 Signature

CYBB
1536
IFNB1 Signature

CYP19A1
1588
IFNB1 Signature

CYP2J2
1573
IFNB1 Signature

DAB2
1601
IFNB1 Signature

DEFA1
1667
IFNB1 Signature

DEFB1
1672
IFNB1 Signature

DHFR
1719
IFNB1 Signature

DLL1
28514
IFNB1 Signature

DMXL1
1657
IFNB1 Signature

DNMT1
1786
IFNB1 Signature

DRAP1
10589
IFNB1 Signature

DSC2
1824
IFNB1 Signature

DUSP5
1847
IFNB1 Signature

DUSP7
1849
IFNB1 Signature

DYNLT1
6993
IFNB1 Signature

DYSF
8291
IFNB1 Signature

E2F1
1869
IFNB1 Signature

ECE1
1889
IFNB1 Signature

EDN1
1906
IFNB1 Signature

EGR1
1958
IFNB1 Signature

EIF2AK2
5610
IFNB1 Signature

EIF2B1
1967
IFNB1 Signature

EIF4ENIF1
56478
IFNB1 Signature

ELF1
1997
IFNB1 Signature

ELF4
2000
IFNB1 Signature

ENPP2
5168
IFNB1 Signature

EPB41
2035
IFNB1 Signature

ETV4
2118
IFNB1 Signature

ETV6
2120
IFNB1 Signature

F8
2157
IFNB1 Signature

FAF1
11124
IFNB1 Signature

FAS
355
IFNB1 Signature

FBXW2
26190
IFNB1 Signature

FCGR1A
2209
IFNB1 Signature

FCMR
9214
IFNB1 Signature

FGF1
2246
IFNB1 Signature

FLNA
2316
IFNB1 Signature

FMR1
2332
IFNB1 Signature

FOXO1
2308
IFNB1 Signature

FPR2
2358
IFNB1 Signature

FTL
2512
IFNB1 Signature

FUT4
2526
IFNB1 Signature

GADD45B
4616
IFNB1 Signature

GBAP1
2630
IFNB1 Signature

GBP1
2633
IFNB1 Signature

GBP2
2634
IFNB1 Signature

GCH1
2643
IFNB1 Signature

GCNT1
2650
IFNB1 Signature

GLS
2744
IFNB1 Signature

GMPR
2766
IFNB1 Signature

GPI
2821
IFNB1 Signature

GPR161
23432
IFNB1 Signature

GUK1
2987
IFNB1 Signature

HBG2
3048
IFNB1 Signature

HCAR3
8843
IFNB1 Signature

HHEX
3087
IFNB1 Signature

HIST2H2AA3
8337
IFNB1 Signature

HK2
3099
IFNB1 Signature

HLA-DOA
3111
IFNB1 Signature

HS6ST1
9394
IFNB1 Signature

HSP90AA1
3320
IFNB1 Signature

HSPA1A
3303
IFNB1 Signature

HSPA1L
3305
IFNB1 Signature

IDO1
3620
IFNB1 Signature

IFI16
3428
IFNB1 Signature

IFI27
3429
IFNB1 Signature

IFI35
3430
IFNB1 Signature

IFI44
10561
IFNB1 Signature

IFI6
2537
IFNB1 Signature

IFIT1
3434
IFNB1 Signature

IFIT5
24138
IFNB1 Signature

IFITM1
8519
IFNB1 Signature

IFITM2
10581
IFNB1 Signature

IFITM3
10410
IFNB1 Signature

IFNG
3458
IFNB1 Signature

IFRD1
3475
IFNB1 Signature

IGL
3535
IFNB1 Signature

IKBKE
9641
IFNB1 Signature

IKBKG
8517
IFNB1 Signature

IL15
3600
IFNB1 Signature

IL15RA
3601
IFNB1 Signature

IL18BP
10068
IFNB1 Signature

IL18R1
8809
IFNB1 Signature

IL1RN
3557
IFNB1 Signature

IL6
3569
IFNB1 Signature

IL7
3574
IFNB1 Signature

INPP5D
3635
IFNB1 Signature

INPPL1
3636
IFNB1 Signature

IRF1
3659
IFNB1 Signature

IRF2
3660
IFNB1 Signature

IRF4
3662
IFNB1 Signature

IRF7
3665
IFNB1 Signature

IRF9
10379
IFNB1 Signature

ISG15
9636
IFNB1 Signature

ISG20
3669
IFNB1 Signature

ITGAL
3683
IFNB1 Signature

ITGAX
3687
IFNB1 Signature

JAK2
3717
IFNB1 Signature

JCHAIN
3512
IFNB1 Signature

JUP
3728
IFNB1 Signature

KCNA3
3738
IFNB1 Signature

KCNMB1
3779
IFNB1 Signature

KDELR2
11014
IFNB1 Signature

KIF20B
9585
IFNB1 Signature

KLF2
10365
IFNB1 Signature

KLF6
1316
IFNB1 Signature

KLRB1
3820
IFNB1 Signature

KPNB1
3837
IFNB1 Signature

KRT8
3856
IFNB1 Signature

LAG3
3902
IFNB1 Signature

LAMP3
27074
IFNB1 Signature

LANCL1
10314
IFNB1 Signature

LAP3
51056
IFNB1 Signature

LBR
3930
IFNB1 Signature

LEPR
3953
IFNB1 Signature

LGALS2
3957
IFNB1 Signature

LGALS3BP
3959
IFNB1 Signature

LGALS9
3965
IFNB1 Signature

LGMN
5641
IFNB1 Signature

LILRA1
11024
IFNB1 Signature

LINC00597
81698
IFNB1 Signature

LMNB1
4001
IFNB1 Signature

LMO2
4005
IFNB1 Signature

LTA
4049
IFNB1 Signature

LTB4R
1241
IFNB1 Signature

LY6E
4061
IFNB1 Signature

LYN
4067
IFNB1 Signature

MAP2K5
5607
IFNB1 Signature

MAP3K8
1326
IFNB1 Signature

MARCKS
4082
IFNB1 Signature

MBNL
4154
IFNB1 Signature

MCL1
4170
IFNB1 Signature

MED1
5469
IFNB1 Signature

MEF2A
4205
IFNB1 Signature

MFHAS1
9258
IFNB1 Signature

MGLL
11343
IFNB1 Signature

MNDA
4332
IFNB1 Signature

MRPS15
64960
IFNB1 Signature

MS4A7
58475
IFNB1 Signature

MSR1
4481
IFNB1 Signature

MX1
4599
IFNB1 Signature

MX2
4600
IFNB1 Signature

MYD88
4615
IFNB1 Signature

NAMPT
10135
IFNB1 Signature

NAPSA
9476
IFNB1 Signature

NBN
4683
IFNB1 Signature

NCF1
653361
IFNB1 Signature

NCOA2
10499
IFNB1 Signature

NEBL
10529
IFNB1 Signature

NEK4
6787
IFNB1 Signature

NFE2L3
9603
IFNB1 Signature

NKTR
4820
IFNB1 Signature

NMI
9111
IFNB1 Signature

NOTCH1
4851
IFNB1 Signature

NR3C1
2908
IFNB1 Signature

NR4A3
8013
IFNB1 Signature

NUB1
51667
IFNB1 Signature

NUPR1
26471
IFNB1 Signature

OAS1
4938
IFNB1 Signature

OAS2
4939
IFNB1 Signature

OAS3
4940
IFNB1 Signature

PATJ
10207
IFNB1 Signature

PAX5
5079
IFNB1 Signature

PAX8
7849
IFNB1 Signature

PDE4B
5142
IFNB1 Signature

PDGFB
5155
IFNB1 Signature

PDGFRL
5157
IFNB1 Signature

PFKFB3
5209
IFNB1 Signature

PFKP
5214
IFNB1 Signature

PIM2
11040
IFNB1 Signature

PKD2
5311
IFNB1 Signature

PLEK
5341
IFNB1 Signature

PLSCR1
5359
IFNB1 Signature

PMAIP1
5366
IFNB1 Signature

PML
5371
IFNB1 Signature

PMS2
5395
IFNB1 Signature

PPP2R2A
5520
IFNB1 Signature

PRKAG1
5571
IFNB1 Signature

PRKRA
8575
IFNB1 Signature

PRKX
5613
IFNB1 Signature

PSMB8
5696
IFNB1 Signature

PSMB9
5698
IFNB1 Signature

PTCH1
5727
IFNB1 Signature

PTGER2
5732
IFNB1 Signature

RALB
5899
IFNB1 Signature

RASGRP1
10125
IFNB1 Signature

RBBP6
5930
IFNB1 Signature

RBCK1
10616
IFNB1 Signature

RERE
473
IFNB1 Signature

RGS1
5996
IFNB1 Signature

RGS6
9628
IFNB1 Signature

RIN1
9610
IFNB1 Signature

RIPK1
8737
IFNB1 Signature

RIPK3
11035
IFNB1 Signature

RIPOR2
9750
IFNB1 Signature

RNF114
55905
IFNB1 Signature

RPS6KA5
9252
IFNB1 Signature

RPS9
6203
IFNB1 Signature

RRBP1
6238
IFNB1 Signature

RTP4
64108
IFNB1 Signature

SAT1
6303
IFNB1 Signature

SCARB2
950
IFNB1 Signature

SDS
10993
IFNB1 Signature

SELL
6402
IFNB1 Signature

SERPIND1
3053
IFNB1 Signature

SERPING1
710
IFNB1 Signature

SFTPB
6439
IFNB1 Signature

SIDT2
51092
IFNB1 Signature

SIT1
27240
IFNB1 Signature

SLAMF1
6504
IFNB1 Signature

SMO
6608
IFNB1 Signature

SNX2
6643
IFNB1 Signature

SOCS1
8651
IFNB1 Signature

SOS1
6654
IFNB1 Signature

SP100
6672
IFNB1 Signature

SP110
3431
IFNB1 Signature

SP140
11262
IFNB1 Signature

SPIB
6689
IFNB1 Signature

SPTA1
6708
IFNB1 Signature

SPTLC2
9517
IFNB1 Signature

SRRM2
23524
IFNB1 Signature

SSB
6741
IFNB1 Signature

ST3GAL5
8869
IFNB1 Signature

STAP1
26228
IFNB1 Signature

STAT1
6772
IFNB1 Signature

STAT2
6773
IFNB1 Signature

STOML2
30968
IFNB1 Signature

STX11
8676
IFNB1 Signature

SUPT3H
8464
IFNB1 Signature

TANK
10010
IFNB1 Signature

TAP1
6890
IFNB1 Signature

TAP2
6891
IFNB1 Signature

TAPBP
6892
IFNB1 Signature

TARBP1
6894
IFNB1 Signature

TBX21
30009
IFNB1 Signature

TCN2
6948
IFNB1 Signature

TFDP2
7029
IFNB1 Signature

TFF1
7031
IFNB1 Signature

TGM1
7051
IFNB1 Signature

THY1
7070
IFNB1 Signature

TLR1
7096
IFNB1 Signature

TLR3
7098
IFNB1 Signature

TLR7
51284
IFNB1 Signature

TNFAIP2
7127
IFNB1 Signature

TNFRSF11A
8792
IFNB1 Signature

TNFSF10
8743
IFNB1 Signature

TNFSF6
356
IFNB1 Signature

TNK2
10188
IFNB1 Signature

TOR1B
27348
IFNB1 Signature

TRA2B
6434
IFNB1 Signature

TRD
6964
IFNB1 Signature

TRG
6965
IFNB1 Signature

TRIM21
6737
IFNB1 Signature

TRIM22
10346
IFNB1 Signature

TRIM26
7726
IFNB1 Signature

TRIM34
53840
IFNB1 Signature

TRIM38
10475
IFNB1 Signature

TSPAN15
23555
IFNB1 Signature

TXK
7294
IFNB1 Signature

UBA7
7318
IFNB1 Signature

UBE2L6
9246
IFNB1 Signature

UBE2S
27338
IFNB1 Signature

UBE3A
7337
IFNB1 Signature

UBQLN2
29978
IFNB1 Signature

UNC93B1
81622
IFNB1 Signature

USP15
9958
IFNB1 Signature

USP18
11274
IFNB1 Signature

USP25
29761
IFNB1 Signature

USPL1
10208
IFNB1 Signature

UVRAG
7405
IFNB1 Signature

VAMP5
10791
IFNB1 Signature

WARS
7453
IFNB1 Signature

WIPF1
7456
IFNB1 Signature

WT1
7490
IFNB1 Signature

XAF1
54739
IFNB1 Signature

ZNF107
51427
IFNB1 Signature

ACLY
47
IFNG Signature

ACSL1
2180
IFNG Signature

AFF2
2334
IFNG Signature

AIM2
9447
IFNG Signature

AKAP10
11216
IFNG Signature

APOL3
80833
IFNG Signature

ATF3
467
IFNG Signature

ATM
472
IFNG Signature

C1QB
713
IFNG Signature

C4A
720
IFNG Signature

CALD1
800
IFNG Signature

CASP1
834
IFNG Signature

CASP10
843
IFNG Signature

CCL8
6355
IFNG Signature

CCND2
894
IFNG Signature

CCR5
1234
IFNG Signature

CD38
952
IFNG Signature

CDKN1A
1026
IFNG Signature

CFB
629
IFNG Signature

CKB
1152
IFNG Signature

CLEC10A
10462
IFNG Signature

CPT1B
1375
IFNG Signature

CSF2RB
1439
IFNG Signature

CTNND2
1501
IFNG Signature

CXCL10
3627
IFNG Signature

CXCL11
6373
IFNG Signature

CXCL9
4283
IFNG Signature

CYBB
1536
IFNG Signature

EDN1
1906
IFNG Signature

EPB41
2035
IFNG Signature

ETAA1
54465
IFNG Signature

ETV4
2118
IFNG Signature

F8
2157
IFNG Signature

FAS
355
IFNG Signature

FBLN1
2192
IFNG Signature

FBXL2
25827
IFNG Signature

FCGR1A
2209
IFNG Signature

FLII
2314
IFNG Signature

GADD45B
4616
IFNG Signature

GBP1
2633
IFNG Signature

GBP2
2634
IFNG Signature

GCH1
2643
IFNG Signature

GCNT1
2650
IFNG Signature

GLS
2744
IFNG Signature

GSTM5
2949
IFNG Signature

HBG2
3048
IFNG Signature

HHEX
3087
IFNG Signature

HP
3240
IFNG Signature

ICAM1
3383
IFNG Signature

IDO1
3620
IFNG Signature

IFI27
3429
IFNG Signature

IFI44
10561
IFNG Signature

IL15
3600
IFNG Signature

IL15RA
3601
IFNG Signature

IL18BP
10068
IFNG Signature

IL1A
3552
IFNG Signature

IL7
3574
IFNG Signature

IRF1
3659
IFNG Signature

IRF8
3394
IFNG Signature

JAK2
3717
IFNG Signature

JCHAIN
3512
IFNG Signature

KLF2
10365
IFNG Signature

LAP3
51056
IFNG Signature

LIMK2
3985
IFNG Signature

LMNB1
4001
IFNG Signature

MMP25
64386
IFNG Signature

MRPS15
64960
IFNG Signature

MSR1
4481
IFNG Signature

NET1
10276
IFNG Signature

NIN
51199
IFNG Signature

NKTR
4820
IFNG Signature

NLRP1
22861
IFNG Signature

NR3C1
2908
IFNG Signature

OAS1
4938
IFNG Signature

OAS3
4940
IFNG Signature

P2RY13
53829
IFNG Signature

PCDH9
5101
IFNG Signature

PLA2G4C
8605
IFNG Signature

PLEK
5341
IFNG Signature

POLR2B
5431
IFNG Signature

PSMB9
5698
IFNG Signature

PTCH1
5727
IFNG Signature

RALB
5899
IFNG Signature

RGS1
5996
IFNG Signature

SERPIND1
3053
IFNG Signature

SERPING1
710
IFNG Signature

SFTPB
6439
IFNG Signature

SLAMF1
6504
IFNG Signature

SLC1A5
6510
IFNG Signature

SOCS1
8651
IFNG Signature

SP100
6672
IFNG Signature

SPRY4
81848
IFNG Signature

SRRM2
23524
IFNG Signature

STAT1
6772
IFNG Signature

STAT2
6773
IFNG Signature

STX11
8676
IFNG Signature

TAP1
6890
IFNG Signature

TAP2
6891
IFNG Signature

TBX21
30009
IFNG Signature

TENM1
10178
IFNG Signature

TFF1
7031
IFNG Signature

TNFAIP2
7127
IFNG Signature

TNFSF10
8743
IFNG Signature

UBD
10537
IFNG Signature

UBE2C
11065
IFNG Signature

UBE2L6
9246
IFNG Signature

UBE3A
7337
IFNG Signature

VAMP5
10791
IFNG Signature

VSNL1
7447
IFNG Signature

WARS
7453
IFNG Signature

XRN1
54464
IFNG Signature

ABCB10
23456
IFNW1 Signature

ACLY
47
IFNW1 Signature

ACSL1
2180
IFNW1 Signature

ADAR
103
IFNW1 Signature

ADM
133
IFNW1 Signature

AGT
183
IFNW1 Signature

AIM2
9447
IFNW1 Signature

AKAP10
11216
IFNW1 Signature

AKAP2
11217
IFNW1 Signature

ALOX12
239
IFNW1 Signature

ANXA4
307
IFNW1 Signature

APOBEC3B
9582
IFNW1 Signature

APOBEC3G
60489
IFNW1 Signature

APOL3
80833
IFNW1 Signature

ATF3
467
IFNW1 Signature

ATF5
22809
IFNW1 Signature

ATM
472
IFNW1 Signature

B4GAT1
11041
IFNW1 Signature

BAG1
573
IFNW1 Signature

BARD1
580
IFNW1 Signature

BCL11A
53335
IFNW1 Signature

BCL7B
9275
IFNW1 Signature

BLVRA
644
IFNW1 Signature

BLZF1
8548
IFNW1 Signature

BRCA1
672
IFNW1 Signature

BRCA2
675
IFNW1 Signature

BRD4
23476
IFNW1 Signature

BST2
684
IFNW1 Signature

C3AR1
719
IFNW1 Signature

CAD
790
IFNW1 Signature

CALD1
800
IFNW1 Signature

CAMK2A
815
IFNW1 Signature

CAPN2
824
IFNW1 Signature

CASK
8573
IFNW1 Signature

CASP1
834
IFNW1 Signature

CASP10
843
IFNW1 Signature

CASP5
838
IFNW1 Signature

CBR1
873
IFNW1 Signature

CBWD1
55871
IFNW1 Signature

CCL13
6357
IFNW1 Signature

CCL3L1
6349
IFNW1 Signature

CCL7
6354
IFNW1 Signature

CCL8
6355
IFNW1 Signature

CCNA1
8900
IFNW1 Signature

CCND2
894
IFNW1 Signature

CCR1
1230
IFNW1 Signature

CCR5
1234
IFNW1 Signature

CCR7
1236
IFNW1 Signature

CCRL2
9034
IFNW1 Signature

CD164
8763
IFNW1 Signature

CD2AP
23607
IFNW1 Signature

CD38
952
IFNW1 Signature

CD4
920
IFNW1 Signature

CD47
961
IFNW1 Signature

CD59
966
IFNW1 Signature

CD69
969
IFNW1 Signature

CDKN1A
1026
IFNW1 Signature

CENPE
1062
IFNW1 Signature

CFB
629
IFNW1 Signature

CFLAR
8837
IFNW1 Signature

CHKA
1119
IFNW1 Signature

CKB
1152
IFNW1 Signature

CMAHP
8418
IFNW1 Signature

CNTN6
27255
IFNW1 Signature

CNTRL
11064
IFNW1 Signature

COL3A1
1281
IFNW1 Signature

CSF2RB
1439
IFNW1 Signature

CTSL
1514
IFNW1 Signature

CXCL10
3627
IFNW1 Signature

CXCL11
6373
IFNW1 Signature

CXCL9
4283
IFNW1 Signature

CXCR2
3579
IFNW1 Signature

CYBB
1536
IFNW1 Signature

CYP19A1
1588
IFNW1 Signature

CYP2J2
1573
IFNW1 Signature

DEFB1
1672
IFNW1 Signature

DLL1
28514
IFNW1 Signature

DSC2
1824
IFNW1 Signature

DUSP5
1847
IFNW1 Signature

DUSP7
1849
IFNW1 Signature

DYNLT1
6993
IFNW1 Signature

DYSF
8291
IFNW1 Signature

E2F1
1869
IFNW1 Signature

ECE1
1889
IFNW1 Signature

EDN1
1906
IFNW1 Signature

EGR1
1958
IFNW1 Signature

EIF2AK2
5610
IFNW1 Signature

EIF2B1
1967
IFNW1 Signature

EIF4ENIF1
56478
IFNW1 Signature

ENPP2
5168
IFNW1 Signature

EPB41
2035
IFNW1 Signature

ERCC4
2072
IFNW1 Signature

ETV4
2118
IFNW1 Signature

ETV6
2120
IFNW1 Signature

F8
2157
IFNW1 Signature

FAF1
11124
IFNW1 Signature

FAS
355
IFNW1 Signature

FCER1G
2207
IFNW1 Signature

FGF1
2246
IFNW1 Signature

FGF13
2258
IFNW1 Signature

FGL2
10875
IFNW1 Signature

FLNA
2316
IFNW1 Signature

FMR1
2332
IFNW1 Signature

FOXO1
2308
IFNW1 Signature

FTL
2512
IFNW1 Signature

FUT4
2526
IFNW1 Signature

GADD45B
4616
IFNW1 Signature

GBAP1
2630
IFNW1 Signature

GBP1
2633
IFNW1 Signature

GBP2
2634
IFNW1 Signature

GCH1
2643
IFNW1 Signature

GCNT1
2650
IFNW1 Signature

GLB1
2720
IFNW1 Signature

GLS
2744
IFNW1 Signature

GMPR
2766
IFNW1 Signature

GPR161
23432
IFNW1 Signature

GSTM5
2949
IFNW1 Signature

GUK1
2987
IFNW1 Signature

HBG2
3048
IFNW1 Signature

HHEX
3087
IFNW1 Signature

HIST2H2AA3
8337
IFNW1 Signature

HLA-DOA
3111
IFNW1 Signature

HS6ST1
9394
IFNW1 Signature

HSP90AA1
3320
IFNW1 Signature

HSPA1A
3303
IFNW1 Signature

IDO1
3620
IFNW1 Signature

IFI16
3428
IFNW1 Signature

IFI27
3429
IFNW1 Signature

IFI35
3430
IFNW1 Signature

IFI44
10561
IFNW1 Signature

IFI6
2537
IFNW1 Signature

IFIT1
3434
IFNW1 Signature

IFIT5
24138
IFNW1 Signature

IFITM1
8519
IFNW1 Signature

IFITM2
10581
IFNW1 Signature

IFITM3
10410
IFNW1 Signature

IFRD1
3475
IFNW1 Signature

IGL
3535
IFNW1 Signature

IKBKG
8517
IFNW1 Signature

IL15
3600
IFNW1 Signature

IL15RA
3601
IFNW1 Signature

IL18R1
8809
IFNW1 Signature

IL1RN
3557
IFNW1 Signature

IL6
3569
IFNW1 Signature

IL7
3574
IFNW1 Signature

INPPL1
3636
IFNW1 Signature

IRF1
3659
IFNW1 Signature

IRF2
3660
IFNW1 Signature

IRF7
3665
IFNW1 Signature

IRF8
3394
IFNW1 Signature

ISG15
9636
IFNW1 Signature

ISG20
3669
IFNW1 Signature

ITIH2
3698
IFNW1 Signature

JAK2
3717
IFNW1 Signature

JCHAIN
3512
IFNW1 Signature

JUP
3728
IFNW1 Signature

KCNA3
3738
IFNW1 Signature

KDELR2
11014
IFNW1 Signature

KIF20B
9585
IFNW1 Signature

KLF6
1316
IFNW1 Signature

KPNB1
3837
IFNW1 Signature

KRT8
3856
IFNW1 Signature

LAG3
3902
IFNW1 Signature

LAMP3
27074
IFNW1 Signature

LAP3
51056
IFNW1 Signature

LEPR
3953
IFNW1 Signature

LGALS2
3957
IFNW1 Signature

LGALS3BP
3959
IFNW1 Signature

LGALS9
3965
IFNW1 Signature

LGMN
5641
IFNW1 Signature

LINC00597
81698
IFNW1 Signature

LMNB1
4001
IFNW1 Signature

LMO2
4005
IFNW1 Signature

LY6E
4061
IFNW1 Signature

LYN
4067
IFNW1 Signature

MAP2K5
5607
IFNW1 Signature

MARCKS
4082
IFNW1 Signature

MBNL1
4154
IFNW1 Signature

MCL1
4170
IFNW1 Signature

MED1
5469
IFNW1 Signature

MEF2A
4205
IFNW1 Signature

MGLL
11343
IFNW1 Signature

MLF1
4291
IFNW1 Signature

MMP16
4325
IFNW1 Signature

MNDA
4332
IFNW1 Signature

MRPS15
64960
IFNW1 Signature

MS4A7
58475
IFNW1 Signature

MSR1
4481
IFNW1 Signature

MX1
4599
IFNW1 Signature

MX2
4600
IFNW1 Signature

MYD88
4615
IFNW1 Signature

NAMPT
10135
IFNW1 Signature

NCF1
653361
IFNW1 Signature

NFE2L3
9603
IFNW1 Signature

NKTR
4820
IFNW1 Signature

NMI
9111
IFNW1 Signature

NPTX1
4884
IFNW1 Signature

NR3C1
2908
IFNW1 Signature

NUB1
51667
IFNW1 Signature

NUPR1
26471
IFNW1 Signature

OAS1
4938
IFNW1 Signature

OAS2
4939
IFNW1 Signature

OAS3
4940
IFNW1 Signature

OSBPL1A
114876
IFNW1 Signature

PATJ
10207
IFNW1 Signature

PAX8
7849
IFNW1 Signature

PDGFB
5155
IFNW1 Signature

PDGFRL
5157
IFNW1 Signature

PKD2
5311
IFNW1 Signature

PLEK
5341
IFNW1 Signature

PLSCR1
5359
IFNW1 Signature

PMAIP1
5366
IFNW1 Signature

PML
5371
IFNW1 Signature

PPP2R2A
5520
IFNW1 Signature

PRKAG1
5571
IFNW1 Signature

PRKRA
8575
IFNW1 Signature

PSMB9
5698
IFNW1 Signature

PTCH1
5727
IFNW1 Signature

PTGER2
5732
IFNW1 Signature

RALB
5899
IFNW1 Signature

RBBP6
5930
IFNW1 Signature

RBCK1
10616
IFNW1 Signature

RERE
473
IFNW1 Signature

RGS1
5996
IFNW1 Signature

RGS6
9628
IFNW1 Signature

RPS6KA5
9252
IFNW1 Signature

RTP4
64108
IFNW1 Signature

SAT1
6303
IFNW1 Signature

SCARB2
950
IFNW1 Signature

SDS
10993
IFNW1 Signature

SELL
6402
IFNW1 Signature

SERPIND1
3053
IFNW1 Signature

SERPING1
710
IFNW1 Signature

SFT2D2
375035
IFNW1 Signature

SIT1
27240
IFNW1 Signature

SLC30A4
7782
IFNW1 Signature

SOCS1
8651
IFNW1 Signature

SOS1
6654
IFNW1 Signature

SP100
6672
IFNW1 Signature

SP110
3431
IFNW1 Signature

SP140
11262
IFNW1 Signature

SPIB
6689
IFNW1 Signature

SRRM2
23524
IFNW1 Signature

ST3GAL5
8869
IFNW1 Signature

STAP1
26228
IFNW1 Signature

STAT1
6772
IFNW1 Signature

STAT2
6773
IFNW1 Signature

STX11
8676
IFNW1 Signature

SUPT3H
8464
IFNW1 Signature

TAP1
6890
IFNW1 Signature

TAP2
6891
IFNW1 Signature

TARBP1
6894
IFNW1 Signature

TBX21
30009
IFNW1 Signature

TCN2
6948
IFNW1 Signature

TFDP2
7029
IFNW1 Signature

TFF1
7031
IFNW1 Signature

TGM1
7051
IFNW1 Signature

THY1
7070
IFNW1 Signature

TLR3
7098
IFNW1 Signature

TLR7
51284
IFNW1 Signature

TNFAIP3
7128
IFNW1 Signature

TNFRSF11A
8792
IFNW1 Signature

TNFSF10
8743
IFNW1 Signature

TNFSF6
356
IFNW1 Signature

TNK2
10188
IFNW1 Signature

TOR1B
27348
IFNW1 Signature

TRA2B
6434
IFNW1 Signature

TRD
6964
IFNW1 Signature

TRIM21
6737
IFNW1 Signature

TRIM22
10346
IFNW1 Signature

TRIM34
53840
IFNW1 Signature

TRIM38
10475
IFNW1 Signature

UBA7
7318
IFNW1 Signature

UBE2C
11065
IFNW1 Signature

UBE2L6
9246
IFNW1 Signature

UBE2S
27338
IFNW1 Signature

UNC93B1
81622
IFNW1 Signature

USP18
11274
IFNW1 Signature

USP25
29761
IFNW1 Signature

WARS
7453
IFNW1 Signature

WIPF1
7456
IFNW1 Signature

WT1
7490
IFNW1 Signature

XAF1
54739
IFNW1 Signature

ZNF107
51427
IFNW1 Signature

ACSL1
2180
TYPE I and TYPE II IFN Core

AIM2
9447
TYPE I and TYPE II IFN Core

APOL3
80833
TYPE I and TYPE II IFN Core

ATF3
467
TYPE I and TYPE II IFN Core

CASP1
834
TYPE I and TYPE II IFN Core

CASP10
843
TYPE I and TYPE II IFN Core

CCL8
6355
TYPE I and TYPE II IFN Core

CCND2
894
TYPE I and TYPE II IFN Core

CD38
952
TYPE I and TYPE II IFN Core

CDKN1A
1026
TYPE I and TYPE II IFN Core

CFB
629
TYPE I and TYPE II IFN Core

CXCL10
3627
TYPE I and TYPE II IFN Core

CXCL11
6373
TYPE I and TYPE II IFN Core

CXCL9
4283
TYPE I and TYPE II IFN Core

EDN1
1906
TYPE I and TYPE II IFN Core

EPB41
2035
TYPE I and TYPE II IFN Core

ETV4
2118
TYPE I and TYPE II IFN Core

F8
2157
TYPE I and TYPE II IFN Core

FAS
355
TYPE I and TYPE II IFN Core

GADD45B
4616
TYPE I and TYPE II IFN Core

GBP1
2633
TYPE I and TYPE II IFN Core

GBP2
2634
TYPE I and TYPE II IFN Core

GCH1
2643
TYPE I and TYPE II IFN Core

GCNT1
2650
TYPE I and TYPE II IFN Core

GLS
2744
TYPE I and TYPE II IFN Core

HBG2
3048
TYPE I and TYPE II IFN Core

IDO1
3620
TYPE I and TYPE II IFN Core

IFI27
3429
TYPE I and TYPE II IFN Core

IFI44
10561
TYPE I and TYPE II IFN Core

IL15
3600
TYPE I and TYPE II IFN Core

IL15RA
3601
TYPE I and TYPE II IFN Core

JAK2
3717
TYPE I and TYPE II IFN Core

LAP3
51056
TYPE I and TYPE II IFN Core

LMNB1
4001
TYPE I and TYPE II IFN Core

MRPS15
64960
TYPE I and TYPE II IFN Core

MSR1
4481
TYPE I and TYPE II IFN Core

NKTR
4820
TYPE I and TYPE II IFN Core

NR3C1
2908
TYPE I and TYPE II IFN Core

OAS1
4938
TYPE I and TYPE II IFN Core

OAS3
4940
TYPE I and TYPE II IFN Core

PSMB9
5698
TYPE I and TYPE II IFN Core

PTCH1
5727
TYPE I and TYPE II IFN Core

RGS1
5996
TYPE I and TYPE II IFN Core

SERPING1
710
TYPE I and TYPE II IFN Core

SOCS1
8651
TYPE I and TYPE II IFN Core

SP100
6672
TYPE I and TYPE II IFN Core

STAT1
6772
TYPE I and TYPE II IFN Core

STAT2
6773
TYPE I and TYPE II IFN Core

STX11
8676
TYPE I and TYPE II IFN Core

TAP1
6890
TYPE I and TYPE II IFN Core

TAP2
6891
TYPE I and TYPE II IFN Core

TNFSF10
8743
TYPE I and TYPE II IFN Core

UBE2L6
9246
TYPE I and TYPE II IFN Core

WARS
7453
TYPE I and TYPE II IFN Core

ACSL1
2180
Type I IFN Core Signature

ADAR
103
Type I IFN Core Signature

AGT
183
Type I IFN Core Signature

AIM2
9447
Type I IFN Core Signature

AKAP2
11217
Type I IFN Core Signature

APOBEC3B
9582
Type I IFN Core Signature

APOBEC3G
60489
Type I IFN Core Signature

APOL3
80833
Type I IFN Core Signature

ATF3
467
Type I IFN Core Signature

ATF5
22809
Type I IFN Core Signature

BAG1
573
Type I IFN Core Signature

BARD1
580
Type I IFN Core Signature

BCL7B
9275
Type I IFN Core Signature

BLVRA
644
Type I IFN Core Signature

BRCA1
672
Type I IFN Core Signature

BRCA2
675
Type I IFN Core Signature

BST2
684
Type I IFN Core Signature

CAD
790
Type I IFN Core Signature

CAMK2A
815
Type I IFN Core Signature

CASP1
834
Type I IFN Core Signature

CASP10
843
Type I IFN Core Signature

CASP5
838
Type I IFN Core Signature

CBR1
873
Type I IFN Core Signature

CBWD1
55871
Type I IFN Core Signature

CCL13
6357
Type I IFN Core Signature

CCL7
6354
Type I IFN Core Signature

CCL8
6355
Type I IFN Core Signature

CCNA1
8900
Type I IFN Core Signature

CCND2
894
Type I IFN Core Signature

CD2AP
23607
Type I IFN Core Signature

CD38
952
Type I IFN Core Signature

CD4
920
Type I IFN Core Signature

CD69
969
Type I IFN Core Signature

CDKN1A
1026
Type I IFN Core Signature

CFB
629
Type I IFN Core Signature

CHKA
1119
Type I IFN Core Signature

CNTN6
27255
Type I IFN Core Signature

COL3A1
1281
Type I IFN Core Signature

CTSL
1514
Type I IFN Core Signature

CXCL10
3627
Type I IFN Core Signature

CXCL11
6373
Type I IFN Core Signature

CXCL9
4283
Type I IFN Core Signature

CXCR2
3579
Type I IFN Core Signature

CYP2J2
1573
Type I IFN Core Signature

DEFB1
1672
Type I IFN Core Signature

DLL1
28514
Type I IFN Core Signature

DSC2
1824
Type I IFN Core Signature

DUSP5
1847
Type I IFN Core Signature

DUSP7
1849
Type I IFN Core Signature

DYNLT1
6993
Type I IFN Core Signature

DYSF
8291
Type I IFN Core Signature

ECE1
1889
Type I IFN Core Signature

EDN1
1906
Type I IFN Core Signature

EIF2AK2
5610
Type I IFN Core Signature

EIF2B1
1967
Type I IFN Core Signature

EIF4ENIF1
56478
Type I IFN Core Signature

ENPP2
5168
Type I IFN Core Signature

EPB41
2035
Type I IFN Core Signature

ETV4
2118
Type I IFN Core Signature

F8
2157
Type I IFN Core Signature

FAF1
11124
Type I IFN Core Signature

FAS
355
Type I IFN Core Signature

FASLG
356
Type I IFN Core Signature

FGF1
2246
Type I IFN Core Signature

FLNA
2316
Type I IFN Core Signature

FOXO1
2308
Type I IFN Core Signature

FTL
2512
Type I IFN Core Signature

FUT4
2526
Type I IFN Core Signature

GADD45B
4616
Type I IFN Core Signature

GBAP1
2630
Type I IFN Core Signature

GBP1
2633
Type I IFN Core Signature

GBP2
2634
Type I IFN Core Signature

GCH1
2643
Type I IFN Core Signature

GCNT1
2650
Type I IFN Core Signature

GLS
2744
Type I IFN Core Signature

GMPR
2766
Type I IFN Core Signature

GPR161
23432
Type I IFN Core Signature

GUK1
2987
Type I IFN Core Signature

HBG2
3048
Type I IFN Core Signature

HIST2H2AA3
8337
Type I IFN Core Signature

HLA-DOA
3111
Type I IFN Core Signature

HS6ST1
9394
Type I IFN Core Signature

HSP90AA1
3320
Type I IFN Core Signature

IDO1
3620
Type I IFN Core Signature

IFI16
3428
Type I IFN Core Signature

IFI27
3429
Type I IFN Core Signature

IFI35
3430
Type I IFN Core Signature

IFI44
10561
Type I IFN Core Signature

IFI6
2537
Type I IFN Core Signature

IFIT1
3434
Type I IFN Core Signature

IFIT5
24138
Type I IFN Core Signature

IFITM1
8519
Type I IFN Core Signature

IFITM2
10581
Type I IFN Core Signature

IFITM3
10410
Type I IFN Core Signature

IFRD1
3475
Type I IFN Core Signature

IGL
3535
Type I IFN Core Signature

IKBKG
8517
Type I IFN Core Signature

IL15
3600
Type I IFN Core Signature

IL15RA
3601
Type I IFN Core Signature

IL1RN
3557
Type I IFN Core Signature

IL6
3569
Type I IFN Core Signature

INPPL1
3636
Type I IFN Core Signature

IRF2
3660
Type I IFN Core Signature

IRF7
3665
Type I IFN Core Signature

ISG15
9636
Type I IFN Core Signature

ISG20
3669
Type I IFN Core Signature

JAK2
3717
Type I IFN Core Signature

JUP
3728
Type I IFN Core Signature

KCNA3
3738
Type I IFN Core Signature

KDELR2
11014
Type I IFN Core Signature

KIF20B
9585
Type I IFN Core Signature

KLF6
1316
Type I IFN Core Signature

KPNB1
3837
Type I IFN Core Signature

KRT8
3856
Type I IFN Core Signature

LAG3
3902
Type I IFN Core Signature

LAMP3
27074
Type I IFN Core Signature

LAP3
51056
Type I IFN Core Signature

LEPR
3953
Type I IFN Core Signature

LGALS2
3957
Type I IFN Core Signature

LGALS3BP
3959
Type I IFN Core Signature

LGALS9
3965
Type I IFN Core Signature

LGMN
5641
Type I IFN Core Signature

LMNB1
4001
Type I IFN Core Signature

LMO2
4005
Type I IFN Core Signature

LY6E
4061
Type I IFN Core Signature

MAP2K5
5607
Type I IFN Core Signature

MCL1
4170
Type I IFN Core Signature

MED1
5469
Type I IFN Core Signature

MGLL
11343
Type I IFN Core Signature

MNDA
4332
Type I IFN Core Signature

MRPS15
64960
Type I IFN Core Signature

MSR1
4481
Type I IFN Core Signature

MX1
4599
Type I IFN Core Signature

MX2
4600
Type I IFN Core Signature

MYD88
4615
Type I IFN Core Signature

NAMPT
10135
Type I IFN Core Signature

NFE2L3
9603
Type I IFN Core Signature

NKTR
4820
Type I IFN Core Signature

NMI
9111
Type I IFN Core Signature

NR3C1
2908
Type I IFN Core Signature

NUB1
51667
Type I IFN Core Signature

NUPR1
26471
Type I IFN Core Signature

OAS1
4938
Type I IFN Core Signature

OAS2
4939
Type I IFN Core Signature

OAS3
4940
Type I IFN Core Signature

PATJ
10207
Type I IFN Core Signature

PDGFB
5155
Type I IFN Core Signature

PDGFRL
5157
Type I IFN Core Signature

PKD2
5311
Type I IFN Core Signature

PLSCR1
5359
Type I IFN Core Signature

PMAIP1
5366
Type I IFN Core Signature

PML
5371
Type I IFN Core Signature

PRKRA
8575
Type I IFN Core Signature

PSMB9
5698
Type I IFN Core Signature

PTCH1
5727
Type I IFN Core Signature

RBCK1
10616
Type I IFN Core Signature

RGS1
5996
Type I IFN Core Signature

RGS6
9628
Type I IFN Core Signature

RTP4
64108
Type I IFN Core Signature

SAT1
6303
Type I IFN Core Signature

SCARB2
950
Type I IFN Core Signature

SERPING1
710
Type I IFN Core Signature

SIT1
27240
Type I IFN Core Signature

SOCS1
8651
Type I IFN Core Signature

SP100
6672
Type I IFN Core Signature

SP110
3431
Type I IFN Core Signature

SP140
11262
Type I IFN Core Signature

SPIB
6689
Type I IFN Core Signature

ST3GAL5
8869
Type I IFN Core Signature

STAP1
26228
Type I IFN Core Signature

STAT1
6772
Type I IFN Core Signature

STAT2
6773
Type I IFN Core Signature

STX11
8676
Type I IFN Core Signature

SUPT3H
8464
Type I IFN Core Signature

TAPI
6890
Type I IFN Core Signature

TAP2
6891
Type I IFN Core Signature

TARBP1
6894
Type I IFN Core Signature

TCN2
6948
Type I IFN Core Signature

TFDP2
7029
Type I IFN Core Signature

TGM1
7051
Type I IFN Core Signature

TLR3
7098
Type I IFN Core Signature

TLR7
51284
Type I IFN Core Signature

TNFRSF11A
8792
Type I IFN Core Signature

TNFSF10
8743
Type I IFN Core Signature

TNK2
10188
Type I IFN Core Signature

TOR1B
27348
Type I IFN Core Signature

TRA2B
6434
Type I IFN Core Signature

TRD
6964
Type I IFN Core Signature

TRIM21
6737
Type I IFN Core Signature

TRIM22
10346
Type I IFN Core Signature

TRIM34
53840
Type I IFN Core Signature

TRIM38
10475
Type I IFN Core Signature

UBA7
7318
Type I IFN Core Signature

UBE2L6
9246
Type I IFN Core Signature

UBE2S
27338
Type I IFN Core Signature

UNC93B1
81622
Type I IFN Core Signature

USP18
11274
Type I IFN Core Signature

WARS
7453
Type I IFN Core Signature

WT1
7490
Type I IFN Core Signature

XAF1
54739
Type I IFN Core Signature

Table of UCSC Eils Lung Modified

geneSymbol
geneEntrezID
GeneSet

ABCA1
19
AT1_Cat

ADIRF
10974
AT1_Cat

AGER
177
AT1_Cat

ANKRD29
147463
AT1_Cat

AQP4
361
AT1_Cat

ARAP2
116984
AT1_Cat

ARHGEF26
26084
AT1_Cat

ATF7IP2
80063
AT1_Cat

CAV1
857
AT1_Cat

CAV2
858
AT1_Cat

CCDC85A
114800
AT1_Cat

CLDN18
51208
AT1_Cat

CLIC5
53405
AT1_Cat

CNTN6
27255
AT1_Cat

COL4A4
1286
AT1_Cat

CYP4B1
1580
AT1_Cat

CYR61
3491
AT1_Cat

DAPK2
23604
AT1_Cat

DOCK4
9732
AT1_Cat

EMP2
2013
AT1_Cat

EPB41L5
57669
AT1_Cat

FAM189A2
9413
AT1_Cat

GALNT13
114805
AT1_Cat

GPC5
2262
AT1_Cat

GPM6A
2823
AT1_Cat

HOMER1
9456
AT1_Cat

KAL1
3730
AT1_Cat

KCNT2
343450
AT1_Cat

KHDRBS2
202559
AT1_Cat

KRT18
3875
AT1_Cat

KRT19
3880
AT1_Cat

KRT7
3855
AT1_Cat

LAMA3
3909
AT1_Cat

LIN7A
8825
AT1_Cat

LINC00842
643650
AT1_Cat

MAP2
4133
AT1_Cat

MS4A15
219995
AT1_Cat

MYO16
23026
AT1_Cat

MYO16-AS1
100885782
AT1_Cat

NEBL
10529
AT1_Cat

NTM
50863
AT1_Cat

PAPSS2
9060
AT1_Cat

PHLDB2
90102
AT1_Cat

PLCE1
51196
AT1_Cat

PTPN21
11099
AT1_Cat

RANBP17
64901
AT1_Cat

RHOBTB3
22836
AT1_Cat

ROR1
4919
AT1_Cat

S100A10
6281
AT1_Cat

SCD5
79966
AT1_Cat

SCEL
8796
AT1_Cat

SLC1A1
6505
AT1_Cat

SLC39A8
64116
AT1_Cat

SLC8A1-AS1
100128590
AT1_Cat

SPOCK2
9806
AT1_Cat

SRPX2
27286
AT1_Cat

ST6GALNAC5
81849
AT1_Cat

TNFRSF12A
51330
AT1_Cat

TSPAN13
27075
AT1_Cat

VEGFA
7422
AT1_Cat

ABCA3
21
AT2_Cat

ABCC9
10060
AT2_Cat

ACOXL
55289
AT2_Cat

AGBL1
123624
AT2_Cat

AGR2
10551
AT2_Cat

ALPL
249
AT2_Cat

ARRDC3
57561
AT2_Cat

C3
718
AT2_Cat

C8orf34
116328
AT2_Cat

C8orf4
56892
AT2_Cat

CACHD1
57685
AT2_Cat

CCDC141
285025
AT2_Cat

COLEC12
81035
AT2_Cat

CTSH
1512
AT2_Cat

DLG2
1740
AT2_Cat

DLGAP1
9229
AT2_Cat

DMBT1
1755
AT2_Cat

ETV1
2115
AT2_Cat

ETV5
2119
AT2_Cat

FAM155A
728215
AT2_Cat

FLRT3
23767
AT2_Cat

FNIP2
57600
AT2_Cat

FREM2
341640
AT2_Cat

HHIP
64399
AT2_Cat

KCNJ15
3772
AT2_Cat

KCNQ3
3786
AT2_Cat

KIAA1324L
222223
AT2_Cat

LEPREL1
55214
AT2_Cat

LHFPL3
375612
AT2_Cat

LINC01090
104355152
AT2_Cat

LRP2BP
55805
AT2_Cat

LRRK2
120892
AT2_Cat

MACROD2
140733
AT2_Cat

MAPK10
5602
AT2_Cat

MFSD2A
84879
AT2_Cat

NAPSA
9476
AT2_Cat

NECAB1
64168
AT2_Cat

NTN4
59277
AT2_Cat

PARM1
25849
AT2_Cat

PCDH9
5101
AT2_Cat

PCDP1
200373
AT2_Cat

PCYOX1
51449
AT2_Cat

PGC
5225
AT2_Cat

PTGFR
5737
AT2_Cat

PTPN13
5783
AT2_Cat

RASGRF1
5923
AT2_Cat

RGS16
6004
AT2_Cat

RND1
27289
AT2_Cat

SCN1A
6323
AT2_Cat

SDR16C5
195814
AT2_Cat

SERPINA1
5265
AT2_Cat

SFTPA2
729238
AT2_Cat

SFTPC
6440
AT2_Cat

SFTPD
6441
AT2_Cat

TMEM163
81615
AT2_Cat

TMEM164
84187
AT2_Cat

TTN
7273
AT2_Cat

WIF1
11197
AT2_Cat

ZNF385B
151126
AT2_Cat

ADGB
79747
Ciliated

AGBL4
84871
Ciliated

AK9
221264
Ciliated

ANKFN1
162282
Ciliated

AQP4-AS1
147429
Ciliated

ARMC3
219681
Ciliated

C12orf55
144535
Ciliated

C20orf26
26074
Ciliated

C20orf85
128602
Ciliated

C21orf58
54058
Ciliated

C4orf47
441054
Ciliated

C9orf117
286207
Ciliated

C9orf171
389799
Ciliated

CAPS
828
Ciliated

CCDC146
57639
Ciliated

CCDC17
149483
Ciliated

CCDC170
80129
Ciliated

CCDC30
728621
Ciliated

CCDC42B
387885
Ciliated

CCDC78
124093
Ciliated

CLEC19A
728276
Ciliated

DCDC1
341019
Ciliated

DNAAF1
123872
Ciliated

DNAH11
8701
Ciliated

DNAH12
201625
Ciliated

DNAH3
55567
Ciliated

DNAH6
1768
Ciliated

DNAH7
56171
Ciliated

DNAI2
64446
Ciliated

DPPA2
151871
Ciliated

DTHD1
401124
Ciliated

DYNC2H1
79659
Ciliated

ECT2L
345930
Ciliated

ESRRG
2104
Ciliated

FABP6
2172
Ciliated

FAM154B
283726
Ciliated

FHAD1
114827
Ciliated

IFLTD1
160492
Ciliated

KIAA0825
285600
Ciliated

KIAA1377
57562
Ciliated

LRGUK
136332
Ciliated

LRRC48
83450
Ciliated

MROH9
80133
Ciliated

MS4A8
83661
Ciliated

NEK10
152110
Ciliated

NEK11
79858
Ciliated

NELL2
4753
Ciliated

PACRG
135138
Ciliated

PRMT8
56341
Ciliated

PTPRT
11122
Ciliated

PTRH1
138428
Ciliated

RP1
6101
Ciliated

RSPH1
89765
Ciliated

SLCO2B1
11309
Ciliated

SPAG16
79582
Ciliated

SPEF2
79925
Ciliated

TEKT1
83659
Ciliated

TMEM232
642987
Ciliated

TPPP3
51673
Ciliated

TSPAN19
144448
Ciliated

TTC18
118491
Ciliated

TTC29
83894
Ciliated

ULK4
54986
Ciliated

VWA3A
146177
Ciliated

VWA3B
200403
Ciliated

WDR78
79819
Ciliated

WDR96
80217
Ciliated

ZBBX
79740
Ciliated

ZMYND10
51364
Ciliated

AADAC
13
Club

ADAM28
10863
Club

AGR3
155465
Club

BMP6
654
Club

BPIFB1
92747
Club

CASC15
401237
Club

CFH
3075
Club

CHST9
83539
Club

CIT
11113
Club

CLIC6
54102
Club

CLU
1191
Club

CNTN4
152330
Club

CP
1356
Club

CXCL2
2920
Club

ERN2
10595
Club

EYA2
2139
Club

FAM129A
116496
Club

FGFR2
2263
Club

FMO2
2327
Club

FOLR1
2348
Club

FRAS1
80144
Club

GDF15
9518
Club

GLIS3
169792
Club

HS3ST5
222537
Club

KCNQ5
56479
Club

KIAA1324
57535
Club

KLK10
5655
Club

KLK11
11012
Club

KRT15
3866
Club

LINC00511
400619
Club

MAGI2
9863
Club

MIR205HG
642587
Club

MME
4311
Club

MMP7
4316
Club

MT-CO1
4512
Club

MT-CO2
4513
Club

MT-ND1
4535
Club

MT-ND3
4537
Club

MUC4
4585
Club

NCEH1
57552
Club

NHS
4810
Club

NTN1
9423
Club

PIGR
5284
Club

PLCL1
5334
Club

PRSS12
8492
Club

SAA1
6288
Club

SCGB1A1
7356
Club

SOX4
6659
Club

SRGAP3
9901
Club

TP63
8626
Club

VTCN1
79679
Club

WFDC2
10406
Club

AKT3
10000
Endothelial

ANO2
57101
Endothelial

AQP1
358
Endothelial

BST2
684
Endothelial

C10orf10
11067
Endothelial

CA4
762
Endothelial

CLDN5
7122
Endothelial

CLEC14A
161198
Endothelial

COL4A2
1284
Endothelial

CTNNAL1
8727
Endothelial

CYYR1
116159
Endothelial

DARC
2532
Endothelial

DPYSL3
1809
Endothelial

ELTD1
64123
Endothelial

EMP1
2012
Endothelial

ENPP2
5168
Endothelial

EXOC6
54536
Endothelial

FLI1
2313
Endothelial

FLT1
2321
Endothelial

FOXO1
2308
Endothelial

GNG11
2791
Endothelial

HLA-E
3133
Endothelial

ICAM2
3384
Endothelial

IGFBP4
3487
Endothelial

IL33
90865
Endothelial

ITGA1
3672
Endothelial

ITM2A
9452
Endothelial

MEF2C
4208
Endothelial

MEIS2
4212
Endothelial

PALMD
54873
Endothelial

PLCB1
23236
Endothelial

PLCB4
5332
Endothelial

PREX2
80243
Endothelial

PRSS23
11098
Endothelial

PTPRB
5787
Endothelial

RAMP2
10266
Endothelial

SEMA6A
57556
Endothelial

SH3BP5
9467
Endothelial

SLCO2A1
6578
Endothelial

SOCS3
9021
Endothelial

SPARC
6678
Endothelial

TCF4
6925
Endothelial

TGFBR3
7049
Endothelial

THBD
7056
Endothelial

TM4SF1
4071
Endothelial

3-Mar
115123
Lymphatic_Endothelium

AKAP12
9590
Lymphatic_Endothelium

CCL21
6366
Lymphatic_Endothelium

CNKSR3
154043
Lymphatic_Endothelium

CNTNAP3B
728577
Lymphatic_Endothelium

COL8A1
1295
Lymphatic_Endothelium

EPB41L3
23136
Lymphatic_Endothelium

FABP4
2167
Lymphatic_Endothelium

FLRT2
23768
Lymphatic_Endothelium

FLT4
2324
Lymphatic_Endothelium

GRAPL
400581
Lymphatic_Endothelium

KALRN
8997
Lymphatic_Endothelium

KCNIP4
80333
Lymphatic_Endothelium

KLHL4
56062
Lymphatic_Endothelium

NPAS3
64067
Lymphatic_Endothelium

NRP2
8828
Lymphatic_Endothelium

PDE1A
5136
Lymphatic_Endothelium

PDE7B
27115
Lymphatic_Endothelium

PKHD1L1
93035
Lymphatic_Endothelium

PPFIBP1
8496
Lymphatic_Endothelium

PROX1
5629
Lymphatic_Endothelium

RELN
5649
Lymphatic_Endothelium

RHOJ
57381
Lymphatic_Endothelium

SEMA3D
223117
Lymphatic_Endothelium

SMOC2
64094
Lymphatic_Endothelium

SNTG2
54221
Lymphatic_Endothelium

ST6GALNAC3
256435
Lymphatic_Endothelium

STON2
85439
Lymphatic_Endothelium

TFF3
7033
Lymphatic_Endothelium

TFPI
7035
Lymphatic_Endothelium

TSHZ2
128553
Lymphatic_Endothelium

TSPAN5
10098
Lymphatic_Endothelium

VAV3
10451
Lymphatic_Endothelium

ZDHHC14
79683
Lymphatic_Endothelium

ZNF521
25925
Lymphatic_Endothelium

Table of All Myeloid Populations

geneSymbol
EntrezID
Category

ANXA1
301
AQP1+ interstitial macrophages steady-state synovium

AQP1
358
AQP1+ interstitial macrophages steady-state synovium

CD9
928
AQP1+ interstitial macrophages steady-state synovium

FXYD2
486
AQP1+ interstitial macrophages steady-state synovium

LYVE1
10894
AQP1+ interstitial macrophages steady-state synovium

TPPP3
51673
AQP1+ interstitial macrophages steady-state synovium

APOE
348
CX3CR1+ lining macrophages steady-state synovium

CAMK1
8536
CX3CR1+ lining macrophages steady-state synovium

CCL3L3
414062
CX3CR1+ lining macrophages steady-state synovium

CD83
9308
CX3CR1+ lining macrophages steady-state synovium

CTSD
1509
CX3CR1+ lining macrophages steady-state synovium

FN1
2335
CX3CR1+ lining macrophages steady-state synovium

FOLR2
2350
CX3CR1+ lining macrophages steady-state synovium

GRN
2896
CX3CR1+ lining macrophages steady-state synovium

HEXB
3074
CX3CR1+ lining macrophages steady-state synovium

LTC4S
4056
CX3CR1+ lining macrophages steady-state synovium

LYZ
4069
CX3CR1+ lining macrophages steady-state synovium

MAN2B1
4125
CX3CR1+ lining macrophages steady-state synovium

NFKBIA
4792
CX3CR1+ lining macrophages steady-state synovium

NUPR1
26471
CX3CR1+ lining macrophages steady-state synovium

PLTP
5360
CX3CR1+ lining macrophages steady-state synovium

S100B
6285
CX3CR1+ lining macrophages steady-state synovium

SPARC
6678
CX3CR1+ lining macrophages steady-state synovium

SRGN
5552
CX3CR1+ lining macrophages steady-state synovium

SYNGR1
9145
CX3CR1+ lining macrophages steady-state synovium

TIMP2
7077
CX3CR1+ lining macrophages steady-state synovium

TMEM37
140738
CX3CR1+ lining macrophages steady-state synovium

TREM2
54209
CX3CR1+ lining macrophages steady-state synovium

VSIG4
11326
CX3CR1+ lining macrophages steady-state synovium

CD52
1043
MHCII+ interstitial macrophages steady-state synovium

CD74
972
MHCII+ interstitial macrophages steady-state synovium

CLEC10A
10462
MHCII+ interstitial macrophages steady-state synovium

CLEC4A
50856
MHCII+ interstitial macrophages steady-state synovium

CORO1A
11151
MHCII+ interstitial macrophages steady-state synovium

GM2A
2760
MHCII+ interstitial macrophages steady-state synovium

HLA-DMA
3108
MHCII+ interstitial macrophages steady-state synovium

HLA-DQA1
3117
MHCII+ interstitial macrophages steady-state synovium

HLA-DQB1
3119
MHCII+ interstitial macrophages steady-state synovium

HLA-DRB5
3127
MHCII+ interstitial macrophages steady-state synovium

LSP1
4046
MHCII+ interstitial macrophages steady-state synovium

PIM1
5292
MHCII+ interstitial macrophages steady-state synovium

CCL13
6357
RELM-α+ interstitial macrophages steady-state synovium

CCL7
6354
RELM-α+ interstitial macrophages steady-state synovium

CXCL3
2921
RELM-α+ interstitial macrophages steady-state synovium

DUSP1
1843
RELM-α+ interstitial macrophages steady-state synovium

ZFP36
7538
RELM-α+ interstitial macrophages steady-state synovium

JUNB
3726
RELM-α+ interstitial macrophages steady-state synovium

PF4
5196
RELM-α+ interstitial macrophages steady-state synovium

FOS
2353
RELM-α+ interstitial macrophages steady-state synovium

ATF3
467
RELM-α+ interstitial macrophages steady-state synovium

MT1A
4489
RELM-α+ interstitial macrophages steady-state synovium

IER3
8870
RELM-α+ interstitial macrophages steady-state synovium

CCL4
6351
RELM-α+ interstitial macrophages steady-state synovium

NFKBIA
4792
RELM-α+ interstitial macrophages steady-state synovium

CCL24
6369
RELM-α+ interstitial macrophages steady-state synovium

MARCKSL1
65108
RELM-α+ interstitial macrophages steady-state synovium

CXCL13
10563
RELM-α+ interstitial macrophages steady-state synovium

JUN
3725
RELM-α+ interstitial macrophages steady-state synovium

CCL3L3
414062
RELM-α+ interstitial macrophages steady-state synovium

MT2A
4502
RELM-α+ interstitial macrophages steady-state synovium

KLF6
1316
RELM-α+ interstitial macrophages steady-state synovium

PIM1
5292
RELM-α+ interstitial macrophages steady-state synovium

IFITM3
10410
RELM-α+ interstitial macrophages steady-state synovium

CD83
9308
RELM-α+ interstitial macrophages steady-state synovium

BTG2
7832
RELM-α+ interstitial macrophages steady-state synovium

KLF4
9314
RELM-α+ interstitial macrophages steady-state synovium

HSPA1A
3303
RELM-α+ interstitial macrophages steady-state synovium

UBC
7316
RELM-α+ interstitial macrophages steady-state synovium

IER2
9592
RELM-α+ interstitial macrophages steady-state synovium

MRC1
4360
RELM-α+ interstitial macrophages steady-state synovium

MCL1
4170
RELM-α+ interstitial macrophages steady-state synovium

MAF
4094
RELM-α+ interstitial macrophages steady-state synovium

ANXA1
301
STMN1+ proliferating cells steady-state synovium

ANXA2
302
STMN1+ proliferating cells steady-state synovium

ARL6IP1
23204
STMN1+ proliferating cells steady-state synovium

ATP5IF1
93974
STMN1+ proliferating cells steady-state synovium

BIRC5
332
STMN1+ proliferating cells steady-state synovium

CBX3
11335
STMN1+ proliferating cells steady-state synovium

CD74
972
STMN1+ proliferating cells steady-state synovium

GAPDH
2597
STMN1+ proliferating cells steady-state synovium

H2AFZ
3015
STMN1+ proliferating cells steady-state synovium

HMGB1
3146
STMN1+ proliferating cells steady-state synovium

HMGB2
3148
STMN1+ proliferating cells steady-state synovium

HNRNPA3
79366
STMN1+ proliferating cells steady-state synovium

JPT1
51155
STMN1+ proliferating cells steady-state synovium

LDHA
3939
STMN1+ proliferating cells steady-state synovium

LGALS1
3956
STMN1+ proliferating cells steady-state synovium

LGALS3
3958
STMN1+ proliferating cells steady-state synovium

MIF
4282
STMN1+ proliferating cells steady-state synovium

NCL
4691
STMN1+ proliferating cells steady-state synovium

NME1
4830
STMN1+ proliferating cells steady-state synovium

NPM1
4869
STMN1+ proliferating cells steady-state synovium

PKM
5315
STMN1+ proliferating cells steady-state synovium

PLP2
5355
STMN1+ proliferating cells steady-state synovium

PTMA
5757
STMN1+ proliferating cells steady-state synovium

RAN
5901
STMN1+ proliferating cells steady-state synovium

RANBP1
5902
STMN1+ proliferating cells steady-state synovium

RBM3
5935
STMN1+ proliferating cells steady-state synovium

S100A10
6281
STMN1+ proliferating cells steady-state synovium

S100A11
6282
STMN1+ proliferating cells steady-state synovium

SLC25A5
292
STMN1+ proliferating cells steady-state synovium

SNRPE
6635
STMN1+ proliferating cells steady-state synovium

SNRPG
6637
STMN1+ proliferating cells steady-state synovium

STMN1
3925
STMN1+ proliferating cells steady-state synovium

TAGLN2
8407
STMN1+ proliferating cells steady-state synovium

TMSB10
9168
STMN1+ proliferating cells steady-state synovium

TUBA1B
10376
STMN1+ proliferating cells steady-state synovium

TUBA1C
84790
STMN1+ proliferating cells steady-state synovium

TUBB
203068
STMN1+ proliferating cells steady-state synovium

TUBB4B
10383
STMN1+ proliferating cells steady-state synovium

TXN
7295
STMN1+ proliferating cells steady-state synovium

UBE2C
11065
STMN1+ proliferating cells steady-state synovium

VIM
7431
STMN1+ proliferating cells steady-state synovium

ACTB
60
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ACTG1
71
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ACTR3
10096
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ADAM8
101
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ADORA2B
136
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ADSSL1
122622
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

AGPAT4
56895
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ALAS1
211
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ALDOA
226
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ALOX5AP
241
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ANKRD11
29123
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ANXA2
302
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

APRT
353
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ARF1
375
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ARF5
381
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ARHGDIB
397
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ARPC1B
10095
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ARPC2
10109
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ARPC3
10094
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ARPC4
10093
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ATF3
467
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ATP5C1
509
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ATP5F1
515
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

B4GALNT1
2583
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

BAK1
578
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

BIN2
51411
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

BIRC3
330
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

BTF3
689
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

BTG1
694
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

BTG2
7832
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

C19orf38
255809
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

C19orf53
28974
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

C5AR1
728
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

C5orf30
90355
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CAPZA2
830
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CAPZB
832
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CASP6
839
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCDC12
151903
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCL13
6357
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCL3L3
414062
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCND3
896
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCNL1
57018
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCR1
1230
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCR2
729230
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CCRL2
9034
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CD14
929
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CD52
1043
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CD53
963
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CD86
942
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CDK2AP2
10263
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CDKN1A
1026
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CDKN2D
1032
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CFP
5199
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CHD7
55636
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CHMP4B
128866
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CISD2
493856
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CLEC4A
50856
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CLEC4D
338339
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CLEC4E
26253
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CLEC6A
93978
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CLIC1
1192
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CNN2
1265
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

COPE
11316
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CORO1A
11151
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CORO1B
57175
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

COTL1
23406
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CSF2RB
1439
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CTSC
1075
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CTSH
1512
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CXCL3
2921
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CYP4F2
8529
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

CYTIP
9595
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

DDX39A
10212
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

DENND4A
10260
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

DMKN
93099
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

DUSP1
1843
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EIF3F
8665
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EIF3H
8667
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EIF3K
27335
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EIF4A1
1973
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EIF5A
1984
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EMB
133418
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EMD
2010
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EMILIN2
84034
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ENO1
2023
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ERP44
23071
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ESD
2098
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

EVL
51466
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

F10
2159
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FAM107B
83641
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FAM49B
51571
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FAM96A
84191
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FAU
2197
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FCER1G
2207
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FCGR1A
2209
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FERMT3
83706
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FES
2242
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FGR
2268
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FIS1
51024
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FLOT1
10211
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FOS
2353
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FOSL2
2355
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FXYD5
53827
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

FYB
2533
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GADD45B
4616
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GADD45G
10912
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GAPDH
2597
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GCSH
2653
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GDA
9615
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GDI2
2665
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GLIPR2
152007
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GLRX
2745
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GM2A
2760
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GMFG
9535
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GNB2
2783
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GNGT2
2793
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GPR132
29933
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GSDMD
79792
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

GSR
2936
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

H2AFJ
55766
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

H2AFY
9555
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

H3F3A
3020
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HCK
3055
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HCLS1
3059
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HEBP1
50865
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HIF1A
3091
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HLA-DMA
3108
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HLA-DMB
3109
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HM13
81502
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HMGCL
3155
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HNRNPA3
220988
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HNRNPDL
9987
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HNRNPK
3190
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HP
3240
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HPCAL1
3241
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HSPA5
3309
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

HSPA8
3312
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ID2
3398
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IER3
8870
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IFI16
3428
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IFITM2
10581
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IFITM3
10410
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IFNAR2
3455
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IFNGR1
3459
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IFNGR2
3460
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IFRD1
3475
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IGSF6
10261
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IL17RA
23765
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IL18
3606
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IL1B
3553
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IL1RN
3557
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

IRF5
3663
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ISCU
23479
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ITGB2
3689
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ITGB7
3695
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

JARID2
3720
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

JUN
3725
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

JUNB
3726
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

KDM6B
23135
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

KDM7A
80853
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LDHA
3939
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LGALS3
3958
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LILRB3
11025
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LIMD2
80774
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LITAF
9516
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LMAN2
10960
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LMNB1
4001
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LRP10
26020
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LRRC25
126364
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LRRFIP1
9208
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LSP1
4046
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LTB4R
1241
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LY6E
4061
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

LYN
4067
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MANF
7873
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MAP2K3
5606
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MCUB
55013
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MEFV
4210
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MGST1
4257
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MILR1
284021
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MMP19
4327
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MPEG1
219972
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MRPL33
9553
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MRPL52
122704
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MSR1
4481
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MSRB1
51734
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MXD1
4084
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MYD88
4615
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MYL12A
10627
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

MYL12B
103910
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NAPSA
9476
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NCF2
4688
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NCF4
4689
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NDEL1
81565
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NDUFA3
4696
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NFE2L2
4780
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NFKBIA
4792
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NFKBIB
4793
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NFKBIZ
64332
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NMI
9111
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NOP53
29997
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NR4A1
3164
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NR4A2
4929
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

NRROS
375387
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

OSM
5008
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PDE4B
5142
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PDIA6
10130
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PGK1
5230
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PHLDA1
22822
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PICALM
8301
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PID1
55022
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PIM1
5292
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PITPNA
5306
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PKM
5315
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PLA2G7
7941
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PLAC8
51316
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PLAUR
5329
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PLBD1
79887
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PLD4
122618
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PLEK
5341
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PLIN2
123
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

POLD4
57804
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

POR
5447
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PPP1CA
5499
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PPP1R15A
23645
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PPP4C
5531
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PPT1
5538
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PRDX5
25824
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PRDX6
9588
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSMA1
5682
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSMA7
5688
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSMB10
5699
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSMB8
5696
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSMB9
5698
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSME1
5720
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSME2
5721
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PSTPIP1
9051
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PTPN1
5770
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PTPN6
5777
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PTPRC
5788
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PXK
54899
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

PYCARD
29108
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RAB32
10981
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RAC2
5880
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RBM3
5935
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RBM39
9584
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RGCC
28984
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RGS2
5997
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RHOG
391
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RNF149
284996
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RNH1
6050
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RNPEP
6051
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL10
6134
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL13
6137
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL15
6138
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL17
6139
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL18
6141
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL18A
6142
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL19
6143
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL24
6152
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL27
6155
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL27A
6157
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL34
6164
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL36AL
6166
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL4
6124
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL8
6132
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPL9
6133
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPLP0
6175
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS14
6208
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS15A
6210
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS16
6217
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS18
6222
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS19
6223
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS27
6232
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS27A
6233
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS3
6188
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS6
6194
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS7
6201
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPS9
6203
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RPSA
3921
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

RUNX3
864
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

S100A11
6282
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SAMHD1
25939
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SBNO2
22904
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SCAND1
51282
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SDE2
163859
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SEC61B
10952
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SEC61G
23480
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SELPLG
6404
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SERP1
27230
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SF3B1
23451
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SF3B6
51639
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SHISA5
51246
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SIRPB1
10326
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SKAP2
8935
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SLC15A3
51296
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SLC16A3
9123
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SLC25A5
292
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SLC7A11
23657
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SLFN5
162394
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SMIM3
85027
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SMOX
54498
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SMPDL3A
10924
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SNX1
6642
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SOCS3
9021
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SOD2
6648
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SPCS2
9789
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SRGN
5552
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SRSF3
6428
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SRSF5
6430
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SSR2
6746
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ST3GAL4
6484
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SUB1
10923
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

SYS1
90196
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TALDO1
6888
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TARM1
441864
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TGFB1
7040
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TGFBI
7045
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TGIF1
7050
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TGM2
7052
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

THBS1
7057
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TKT
7086
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TLR2
7097
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TM6SF1
53346
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMA7
51372
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMBIM6
7009
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMED2
10959
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMED5
50999
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMEM14C
51522
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMEM167A
153339
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMEM258
746
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TMSB10
9168
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TNFRSF1A
7132
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TOR1A
1861
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TOR1AIP1
26092
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TPD52
7163
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TPM4
7171
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TPST2
8459
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TRAF1
7185
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TRAM1
23471
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TREM1
54210
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TRIB1
10221
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TRPS1
7227
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TSPO
706
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TWF2
11344
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

TYROBP
7305
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UBA52
7311
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UBC
7316
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UBE2D3
7323
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UBE2L3
7332
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UBE2N
7334
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UCK2
7371
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UCP2
7351
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

UQCRC1
7384
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

VAMP4
8674
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

VASP
7408
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

VCAN
1462
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

VMP1
81671
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

XBP1
7494
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ZBP1
81030
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ZEB2
9839
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ZFP36
7538
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ZNF705A
440077
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ZYX
7791
CCR2+IL1B+ infiltrating macrophages inflammatory arthritis

synovium

ABCA1
19
CX3CR1+ lining macrophages inflammatory arthritis synovium

ABHD12
26090
CX3CR1+ lining macrophages inflammatory arthritis synovium

ADAM15
8751
CX3CR1+ lining macrophages inflammatory arthritis synovium

ADGRE5
976
CX3CR1+ lining macrophages inflammatory arthritis synovium

AHNAK2
113146
CX3CR1+ lining macrophages inflammatory arthritis synovium

AKR1B1
231
CX3CR1+ lining macrophages inflammatory arthritis synovium

ALDH2
217
CX3CR1+ lining macrophages inflammatory arthritis synovium

ALOX5
240
CX3CR1+ lining macrophages inflammatory arthritis synovium

ANG
283
CX3CR1+ lining macrophages inflammatory arthritis synovium

ANXA3
306
CX3CR1+ lining macrophages inflammatory arthritis synovium

APOE
348
CX3CR1+ lining macrophages inflammatory arthritis synovium

APP
351
CX3CR1+ lining macrophages inflammatory arthritis synovium

ARL11
115761
CX3CR1+ lining macrophages inflammatory arthritis synovium

ARSB
411
CX3CR1+ lining macrophages inflammatory arthritis synovium

ASAH1
427
CX3CR1+ lining macrophages inflammatory arthritis synovium

ASS1
445
CX3CR1+ lining macrophages inflammatory arthritis synovium

ATP6AP1
537
CX3CR1+ lining macrophages inflammatory arthritis synovium

ATRAID
51374
CX3CR1+ lining macrophages inflammatory arthritis synovium

AXL
558
CX3CR1+ lining macrophages inflammatory arthritis synovium

B2M
567
CX3CR1+ lining macrophages inflammatory arthritis synovium

BCL2A1
597
CX3CR1+ lining macrophages inflammatory arthritis synovium

BIN1
274
CX3CR1+ lining macrophages inflammatory arthritis synovium

BLNK
29760
CX3CR1+ lining macrophages inflammatory arthritis synovium

BLVRB
645
CX3CR1+ lining macrophages inflammatory arthritis synovium

BMP2K
55589
CX3CR1+ lining macrophages inflammatory arthritis synovium

C1QA
712
CX3CR1+ lining macrophages inflammatory arthritis synovium

C1QB
713
CX3CR1+ lining macrophages inflammatory arthritis synovium

C1QC
714
CX3CR1+ lining macrophages inflammatory arthritis synovium

C3AR1
719
CX3CR1+ lining macrophages inflammatory arthritis synovium

C3orf70
285382
CX3CR1+ lining macrophages inflammatory arthritis synovium

C4B
721
CX3CR1+ lining macrophages inflammatory arthritis synovium

C9orf3
84909
CX3CR1+ lining macrophages inflammatory arthritis synovium

CAMK1
8536
CX3CR1+ lining macrophages inflammatory arthritis synovium

CC2D1B
200014
CX3CR1+ lining macrophages inflammatory arthritis synovium

CCL3L3
414062
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD109
135228
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD151
977
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD37
951
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD40
958
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD63
967
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD83
9308
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD84
8832
CX3CR1+ lining macrophages inflammatory arthritis synovium

CD9
928
CX3CR1+ lining macrophages inflammatory arthritis synovium

CDKN2C
1031
CX3CR1+ lining macrophages inflammatory arthritis synovium

CEBPA
1050
CX3CR1+ lining macrophages inflammatory arthritis synovium

CEBPG
1054
CX3CR1+ lining macrophages inflammatory arthritis synovium

CEBPZOS
1.01E+08
CX3CR1+ lining macrophages inflammatory arthritis synovium

CFH
3075
CX3CR1+ lining macrophages inflammatory arthritis synovium

CHD9
80205
CX3CR1+ lining macrophages inflammatory arthritis synovium

CHST1
8534
CX3CR1+ lining macrophages inflammatory arthritis synovium

CLEC12A
160364
CX3CR1+ lining macrophages inflammatory arthritis synovium

CLIC4
25932
CX3CR1+ lining macrophages inflammatory arthritis synovium

COLEC12
81035
CX3CR1+ lining macrophages inflammatory arthritis synovium

COMMD10
51397
CX3CR1+ lining macrophages inflammatory arthritis synovium

COMT
1312
CX3CR1+ lining macrophages inflammatory arthritis synovium

COTL1
23406
CX3CR1+ lining macrophages inflammatory arthritis synovium

CREG1
8804
CX3CR1+ lining macrophages inflammatory arthritis synovium

CRLF2
64109
CX3CR1+ lining macrophages inflammatory arthritis synovium

CSF1R
1436
CX3CR1+ lining macrophages inflammatory arthritis synovium

CSPG4
1464
CX3CR1+ lining macrophages inflammatory arthritis synovium

CST3
1471
CX3CR1+ lining macrophages inflammatory arthritis synovium

CTSA
5476
CX3CR1+ lining macrophages inflammatory arthritis synovium

CTSB
1508
CX3CR1+ lining macrophages inflammatory arthritis synovium

CTSD
1509
CX3CR1+ lining macrophages inflammatory arthritis synovium

CTSF
8722
CX3CR1+ lining macrophages inflammatory arthritis synovium

CTSS
1520
CX3CR1+ lining macrophages inflammatory arthritis synovium

CX3CR1
1524
CX3CR1+ lining macrophages inflammatory arthritis synovium

CYB5A
1528
CX3CR1+ lining macrophages inflammatory arthritis synovium

CYFIP1
23191
CX3CR1+ lining macrophages inflammatory arthritis synovium

DDX3X
1654
CX3CR1+ lining macrophages inflammatory arthritis synovium

DHRS3
9249
CX3CR1+ lining macrophages inflammatory arthritis synovium

DHRS7
51635
CX3CR1+ lining macrophages inflammatory arthritis synovium

DNASE2
1777
CX3CR1+ lining macrophages inflammatory arthritis synovium

DOK3
79930
CX3CR1+ lining macrophages inflammatory arthritis synovium

DPP7
29952
CX3CR1+ lining macrophages inflammatory arthritis synovium

DSTN
11034
CX3CR1+ lining macrophages inflammatory arthritis synovium

DTNBP1
84062
CX3CR1+ lining macrophages inflammatory arthritis synovium

DUSP3
1845
CX3CR1+ lining macrophages inflammatory arthritis synovium

ECM1
1893
CX3CR1+ lining macrophages inflammatory arthritis synovium

ECSCR
641700
CX3CR1+ lining macrophages inflammatory arthritis synovium

EGR1
1958
CX3CR1+ lining macrophages inflammatory arthritis synovium

ELMO1
9844
CX3CR1+ lining macrophages inflammatory arthritis synovium

EMP3
2014
CX3CR1+ lining macrophages inflammatory arthritis synovium

ENPP1
5167
CX3CR1+ lining macrophages inflammatory arthritis synovium

ENTPD1
953
CX3CR1+ lining macrophages inflammatory arthritis synovium

ERGIC3
51614
CX3CR1+ lining macrophages inflammatory arthritis synovium

F11R
50848
CX3CR1+ lining macrophages inflammatory arthritis synovium

FABP3
2170
CX3CR1+ lining macrophages inflammatory arthritis synovium

FAM213B
127281
CX3CR1+ lining macrophages inflammatory arthritis synovium

FAM3C
10447
CX3CR1+ lining macrophages inflammatory arthritis synovium

FBXW4
6468
CX3CR1+ lining macrophages inflammatory arthritis synovium

FCGRT
2217
CX3CR1+ lining macrophages inflammatory arthritis synovium

FCHSD2
9873
CX3CR1+ lining macrophages inflammatory arthritis synovium

FERMT2
10979
CX3CR1+ lining macrophages inflammatory arthritis synovium

FEZ2
9637
CX3CR1+ lining macrophages inflammatory arthritis synovium

FN1
2335
CX3CR1+ lining macrophages inflammatory arthritis synovium

FOLR2
2350
CX3CR1+ lining macrophages inflammatory arthritis synovium

FOSB
2354
CX3CR1+ lining macrophages inflammatory arthritis synovium

FTH1
2495
CX3CR1+ lining macrophages inflammatory arthritis synovium

FTL
2512
CX3CR1+ lining macrophages inflammatory arthritis synovium

FUCA1
2517
CX3CR1+ lining macrophages inflammatory arthritis synovium

GAS6
2621
CX3CR1+ lining macrophages inflammatory arthritis synovium

GLMP
112770
CX3CR1+ lining macrophages inflammatory arthritis synovium

GLTP
51228
CX3CR1+ lining macrophages inflammatory arthritis synovium

GLUL
2752
CX3CR1+ lining macrophages inflammatory arthritis synovium

GNA15
2769
CX3CR1+ lining macrophages inflammatory arthritis synovium

GNAS
2778
CX3CR1+ lining macrophages inflammatory arthritis synovium

GNG5
2787
CX3CR1+ lining macrophages inflammatory arthritis synovium

GNS
2799
CX3CR1+ lining macrophages inflammatory arthritis synovium

GPR34
2857
CX3CR1+ lining macrophages inflammatory arthritis synovium

GPX1
2876
CX3CR1+ lining macrophages inflammatory arthritis synovium

GPX4
2879
CX3CR1+ lining macrophages inflammatory arthritis synovium

GRN
2896
CX3CR1+ lining macrophages inflammatory arthritis synovium

GUSB
2990
CX3CR1+ lining macrophages inflammatory arthritis synovium

HEXA
3073
CX3CR1+ lining macrophages inflammatory arthritis synovium

HEXB
3074
CX3CR1+ lining macrophages inflammatory arthritis synovium

HLA-A
3105
CX3CR1+ lining macrophages inflammatory arthritis synovium

HPGD
3248
CX3CR1+ lining macrophages inflammatory arthritis synovium

HPGDS
27306
CX3CR1+ lining macrophages inflammatory arthritis synovium

HSBP1
3281
CX3CR1+ lining macrophages inflammatory arthritis synovium

IER2
9592
CX3CR1+ lining macrophages inflammatory arthritis synovium

IGF1
3479
CX3CR1+ lining macrophages inflammatory arthritis synovium

IL11RA
3590
CX3CR1+ lining macrophages inflammatory arthritis synovium

ITGAV
3685
CX3CR1+ lining macrophages inflammatory arthritis synovium

ITGB1
3688
CX3CR1+ lining macrophages inflammatory arthritis synovium

ITGB2
3689
CX3CR1+ lining macrophages inflammatory arthritis synovium

ITGB5
3693
CX3CR1+ lining macrophages inflammatory arthritis synovium

ITM2B
9445
CX3CR1+ lining macrophages inflammatory arthritis synovium

ITM2C
81618
CX3CR1+ lining macrophages inflammatory arthritis synovium

KCNK13
56659
CX3CR1+ lining macrophages inflammatory arthritis synovium

KLC1
3831
CX3CR1+ lining macrophages inflammatory arthritis synovium

KLF2
10365
CX3CR1+ lining macrophages inflammatory arthritis synovium

KLF4
9314
CX3CR1+ lining macrophages inflammatory arthritis synovium

KLHL6
89857
CX3CR1+ lining macrophages inflammatory arthritis synovium

LAMP1
3916
CX3CR1+ lining macrophages inflammatory arthritis synovium

LAMP2
3920
CX3CR1+ lining macrophages inflammatory arthritis synovium

LAMTOR1
55004
CX3CR1+ lining macrophages inflammatory arthritis synovium

LAPTM4A
9741
CX3CR1+ lining macrophages inflammatory arthritis synovium

LGALS9B
284194
CX3CR1+ lining macrophages inflammatory arthritis synovium

LGMN
5641
CX3CR1+ lining macrophages inflammatory arthritis synovium

LIPA
3988
CX3CR1+ lining macrophages inflammatory arthritis synovium

LMO2
4005
CX3CR1+ lining macrophages inflammatory arthritis synovium

LPCAT2
54947
CX3CR1+ lining macrophages inflammatory arthritis synovium

LRP1
4035
CX3CR1+ lining macrophages inflammatory arthritis synovium

LTC4S
4056
CX3CR1+ lining macrophages inflammatory arthritis synovium

LUZP1
7798
CX3CR1+ lining macrophages inflammatory arthritis synovium

LY86
9450
CX3CR1+ lining macrophages inflammatory arthritis synovium

LYL1
4066
CX3CR1+ lining macrophages inflammatory arthritis synovium

LYVE1
10894
CX3CR1+ lining macrophages inflammatory arthritis synovium

LYZ
4069
CX3CR1+ lining macrophages inflammatory arthritis synovium

MACF1
23499
CX3CR1+ lining macrophages inflammatory arthritis synovium

MAF
4094
CX3CR1+ lining macrophages inflammatory arthritis synovium

MAN2B1
4125
CX3CR1+ lining macrophages inflammatory arthritis synovium

MAP1LC3A
84557
CX3CR1+ lining macrophages inflammatory arthritis synovium

MAPK3
5595
CX3CR1+ lining macrophages inflammatory arthritis synovium

MARCKS
4082
CX3CR1+ lining macrophages inflammatory arthritis synovium

MDH1
4190
CX3CR1+ lining macrophages inflammatory arthritis synovium

MEF2A
4205
CX3CR1+ lining macrophages inflammatory arthritis synovium

MEF2C
4208
CX3CR1+ lining macrophages inflammatory arthritis synovium

MFGE8
4240
CX3CR1+ lining macrophages inflammatory arthritis synovium

MGST1
4257
CX3CR1+ lining macrophages inflammatory arthritis synovium

MGST3
4259
CX3CR1+ lining macrophages inflammatory arthritis synovium

MOB2
81532
CX3CR1+ lining macrophages inflammatory arthritis synovium

MPP1
4354
CX3CR1+ lining macrophages inflammatory arthritis synovium

MS4A7
58475
CX3CR1+ lining macrophages inflammatory arthritis synovium

MT-ND2
4536
CX3CR1+ lining macrophages inflammatory arthritis synovium

MTDH
92140
CX3CR1+ lining macrophages inflammatory arthritis synovium

MTUS1
57509
CX3CR1+ lining macrophages inflammatory arthritis synovium

NAGK
55577
CX3CR1+ lining macrophages inflammatory arthritis synovium

NCF1
653361
CX3CR1+ lining macrophages inflammatory arthritis synovium

NECAP2
55707
CX3CR1+ lining macrophages inflammatory arthritis synovium

NFIA
4774
CX3CR1+ lining macrophages inflammatory arthritis synovium

NFIC
4782
CX3CR1+ lining macrophages inflammatory arthritis synovium

NINJ1
4814
CX3CR1+ lining macrophages inflammatory arthritis synovium

NPC2
10577
CX3CR1+ lining macrophages inflammatory arthritis synovium

NPL
80896
CX3CR1+ lining macrophages inflammatory arthritis synovium

NPTN
27020
CX3CR1+ lining macrophages inflammatory arthritis synovium

NRP1
8829
CX3CR1+ lining macrophages inflammatory arthritis synovium

NTPCR
84284
CX3CR1+ lining macrophages inflammatory arthritis synovium

NUCB1
4924
CX3CR1+ lining macrophages inflammatory arthritis synovium

NUPR1
26471
CX3CR1+ lining macrophages inflammatory arthritis synovium

OLFML3
56944
CX3CR1+ lining macrophages inflammatory arthritis synovium

OPHN1
4983
CX3CR1+ lining macrophages inflammatory arthritis synovium

P2RX4
5025
CX3CR1+ lining macrophages inflammatory arthritis synovium

P2RY12
64805
CX3CR1+ lining macrophages inflammatory arthritis synovium

P2RY6
5031
CX3CR1+ lining macrophages inflammatory arthritis synovium

PALD1
27143
CX3CR1+ lining macrophages inflammatory arthritis synovium

PBXIP1
57326
CX3CR1+ lining macrophages inflammatory arthritis synovium

PDLIM2
64236
CX3CR1+ lining macrophages inflammatory arthritis synovium

PDLIM7
9260
CX3CR1+ lining macrophages inflammatory arthritis synovium

PEPD
5184
CX3CR1+ lining macrophages inflammatory arthritis synovium

PKIB
5570
CX3CR1+ lining macrophages inflammatory arthritis synovium

PLA2G15
23659
CX3CR1+ lining macrophages inflammatory arthritis synovium

PLA2G16
11145
CX3CR1+ lining macrophages inflammatory arthritis synovium

PLBD2
196463
CX3CR1+ lining macrophages inflammatory arthritis synovium

PLOD1
5351
CX3CR1+ lining macrophages inflammatory arthritis synovium

PLTP
5360
CX3CR1+ lining macrophages inflammatory arthritis synovium

PLXNB2
23654
CX3CR1+ lining macrophages inflammatory arthritis synovium

PMEPA1
56937
CX3CR1+ lining macrophages inflammatory arthritis synovium

PMP22
5376
CX3CR1+ lining macrophages inflammatory arthritis synovium

PNKD
25953
CX3CR1+ lining macrophages inflammatory arthritis synovium

POLR2E
5434
CX3CR1+ lining macrophages inflammatory arthritis synovium

PON2
5445
CX3CR1+ lining macrophages inflammatory arthritis synovium

PON3
5446
CX3CR1+ lining macrophages inflammatory arthritis synovium

PRUNE2
158471
CX3CR1+ lining macrophages inflammatory arthritis synovium

PTPRA
5786
CX3CR1+ lining macrophages inflammatory arthritis synovium

QKI
9444
CX3CR1+ lining macrophages inflammatory arthritis synovium

QPCT
25797
CX3CR1+ lining macrophages inflammatory arthritis synovium

RAB11A
8766
CX3CR1+ lining macrophages inflammatory arthritis synovium

RAB11FIP5
26056
CX3CR1+ lining macrophages inflammatory arthritis synovium

RAB31
11031
CX3CR1+ lining macrophages inflammatory arthritis synovium

RAB3IL1
5866
CX3CR1+ lining macrophages inflammatory arthritis synovium

RABAC1
10567
CX3CR1+ lining macrophages inflammatory arthritis synovium

RASGEF1B
153020
CX3CR1+ lining macrophages inflammatory arthritis synovium

RASGRP3
25780
CX3CR1+ lining macrophages inflammatory arthritis synovium

RENBP
5973
CX3CR1+ lining macrophages inflammatory arthritis synovium

RFTN1
23180
CX3CR1+ lining macrophages inflammatory arthritis synovium

RGS10
6001
CX3CR1+ lining macrophages inflammatory arthritis synovium

RHOA
387
CX3CR1+ lining macrophages inflammatory arthritis synovium

RHOB
388
CX3CR1+ lining macrophages inflammatory arthritis synovium

RHOC
389
CX3CR1+ lining macrophages inflammatory arthritis synovium

RIN2
54453
CX3CR1+ lining macrophages inflammatory arthritis synovium

RNASE4
6038
CX3CR1+ lining macrophages inflammatory arthritis synovium

RNASET2
8635
CX3CR1+ lining macrophages inflammatory arthritis synovium

RNF13
11342
CX3CR1+ lining macrophages inflammatory arthritis synovium

RTCB
51493
CX3CR1+ lining macrophages inflammatory arthritis synovium

S100A1
6271
CX3CR1+ lining macrophages inflammatory arthritis synovium

S100A13
6284
CX3CR1+ lining macrophages inflammatory arthritis synovium

S100B
6285
CX3CR1+ lining macrophages inflammatory arthritis synovium

S1PR1
1901
CX3CR1+ lining macrophages inflammatory arthritis synovium

SAMD9L
219285
CX3CR1+ lining macrophages inflammatory arthritis synovium

SARAF
51669
CX3CR1+ lining macrophages inflammatory arthritis synovium

SASH1
23328
CX3CR1+ lining macrophages inflammatory arthritis synovium

SAT1
6303
CX3CR1+ lining macrophages inflammatory arthritis synovium

SCAMP2
10066
CX3CR1+ lining macrophages inflammatory arthritis synovium

SCOC
60592
CX3CR1+ lining macrophages inflammatory arthritis synovium

SEC14L1
6397
CX3CR1+ lining macrophages inflammatory arthritis synovium

SELENBP1
8991
CX3CR1+ lining macrophages inflammatory arthritis synovium

SELENOM
140606
CX3CR1+ lining macrophages inflammatory arthritis synovium

SELENOP
6414
CX3CR1+ lining macrophages inflammatory arthritis synovium

SELENOW
6415
CX3CR1+ lining macrophages inflammatory arthritis synovium

SERINC3
10955
CX3CR1+ lining macrophages inflammatory arthritis synovium

SERPINB6
5269
CX3CR1+ lining macrophages inflammatory arthritis synovium

SERPINE1
5054
CX3CR1+ lining macrophages inflammatory arthritis synovium

SESN1
27244
CX3CR1+ lining macrophages inflammatory arthritis synovium

SFXN3
81855
CX3CR1+ lining macrophages inflammatory arthritis synovium

SGK1
6446
CX3CR1+ lining macrophages inflammatory arthritis synovium

SH3BP5
9467
CX3CR1+ lining macrophages inflammatory arthritis synovium

SH3GLB1
51100
CX3CR1+ lining macrophages inflammatory arthritis synovium

SIGMAR1
10280
CX3CR1+ lining macrophages inflammatory arthritis synovium

SIRT2
22933
CX3CR1+ lining macrophages inflammatory arthritis synovium

SKI
6497
CX3CR1+ lining macrophages inflammatory arthritis synovium

SKIL
6498
CX3CR1+ lining macrophages inflammatory arthritis synovium

SLC27A1
376497
CX3CR1+ lining macrophages inflammatory arthritis synovium

SLC29A1
2030
CX3CR1+ lining macrophages inflammatory arthritis synovium

SLC2A6
11182
CX3CR1+ lining macrophages inflammatory arthritis synovium

SLC6A6
6533
CX3CR1+ lining macrophages inflammatory arthritis synovium

SLC9A3R2
9351
CX3CR1+ lining macrophages inflammatory arthritis synovium

SLCO2B1
11309
CX3CR1+ lining macrophages inflammatory arthritis synovium

SMAGP
57228
CX3CR1+ lining macrophages inflammatory arthritis synovium

SMIM14
201895
CX3CR1+ lining macrophages inflammatory arthritis synovium

SNX3
8724
CX3CR1+ lining macrophages inflammatory arthritis synovium

SPARC
6678
CX3CR1+ lining macrophages inflammatory arthritis synovium

SPTBN1
6711
CX3CR1+ lining macrophages inflammatory arthritis synovium

SPTSSA
171546
CX3CR1+ lining macrophages inflammatory arthritis synovium

SRGAP2
23380
CX3CR1+ lining macrophages inflammatory arthritis synovium

SSBP4
170463
CX3CR1+ lining macrophages inflammatory arthritis synovium

ST3GAL5
8869
CX3CR1+ lining macrophages inflammatory arthritis synovium

STAB1
23166
CX3CR1+ lining macrophages inflammatory arthritis synovium

STOM
2040
CX3CR1+ lining macrophages inflammatory arthritis synovium

STX4
6810
CX3CR1+ lining macrophages inflammatory arthritis synovium

SULF2
55959
CX3CR1+ lining macrophages inflammatory arthritis synovium

SYNGR1
9145
CX3CR1+ lining macrophages inflammatory arthritis synovium

TBXAS1
6916
CX3CR1+ lining macrophages inflammatory arthritis synovium

TCIM
56892
CX3CR1+ lining macrophages inflammatory arthritis synovium

TCN2
6948
CX3CR1+ lining macrophages inflammatory arthritis synovium

TECR
9524
CX3CR1+ lining macrophages inflammatory arthritis synovium

TGFBR1
7046
CX3CR1+ lining macrophages inflammatory arthritis synovium

TGFBR2
7048
CX3CR1+ lining macrophages inflammatory arthritis synovium

TIMD4
91937
CX3CR1+ lining macrophages inflammatory arthritis synovium

TIMP2
7077
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMBIM1
64114
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMEM141
85014
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMEM176B
28959
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMEM37
140738
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMEM50A
23585
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMEM59
9528
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMEM86A
144110
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMEM9B
56674
CX3CR1+ lining macrophages inflammatory arthritis synovium

TMSB4X
7114
CX3CR1+ lining macrophages inflammatory arthritis synovium

TNFRSF21
27242
CX3CR1+ lining macrophages inflammatory arthritis synovium

TNFSF12
8742
CX3CR1+ lining macrophages inflammatory arthritis synovium

TNS1
7145
CX3CR1+ lining macrophages inflammatory arthritis synovium

TPP1
1200
CX3CR1+ lining macrophages inflammatory arthritis synovium

TREM2
54209
CX3CR1+ lining macrophages inflammatory arthritis synovium

TSC22D3
1831
CX3CR1+ lining macrophages inflammatory arthritis synovium

TSPAN3
10099
CX3CR1+ lining macrophages inflammatory arthritis synovium

TSPAN4
7106
CX3CR1+ lining macrophages inflammatory arthritis synovium

TUBA1A
7846
CX3CR1+ lining macrophages inflammatory arthritis synovium

UBXN1
51035
CX3CR1+ lining macrophages inflammatory arthritis synovium

UCHL3
7347
CX3CR1+ lining macrophages inflammatory arthritis synovium

VAT1
10493
CX3CR1+ lining macrophages inflammatory arthritis synovium

VSIG4
11326
CX3CR1+ lining macrophages inflammatory arthritis synovium

YPEL3
83719
CX3CR1+ lining macrophages inflammatory arthritis synovium

ZBTB20
26137
CX3CR1+ lining macrophages inflammatory arthritis synovium

ZFHX3
463
CX3CR1+ lining macrophages inflammatory arthritis synovium

ZMIZ1
57178
CX3CR1+ lining macrophages inflammatory arthritis synovium

ABCA9
10350
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ABHD12
26090
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ACAT1
38
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ACOT13
55856
RELM-α+ interstitial macrophages inflammatory arthritis synovium

AHNAK
79026
RELM-α+ interstitial macrophages inflammatory arthritis synovium

AHNAK2
113146
RELM-α+ interstitial macrophages inflammatory arthritis synovium

AKR1B1
231
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ALDH2
217
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ALOX5
240
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ANG
283
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ANP32A
8125
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ANXA11
311
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ANXA6
309
RELM-α+ interstitial macrophages inflammatory arthritis synovium

AP1B1
162
RELM-α+ interstitial macrophages inflammatory arthritis synovium

AP2A2
161
RELM-α+ interstitial macrophages inflammatory arthritis synovium

AP2M1
1173
RELM-α+ interstitial macrophages inflammatory arthritis synovium

APLP2
334
RELM-α+ interstitial macrophages inflammatory arthritis synovium

AQP1
358
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ATRAID
51374
RELM-α+ interstitial macrophages inflammatory arthritis synovium

BIN1
274
RELM-α+ interstitial macrophages inflammatory arthritis synovium

BLVRB
645
RELM-α+ interstitial macrophages inflammatory arthritis synovium

BORCS6
54785
RELM-α+ interstitial macrophages inflammatory arthritis synovium

C16orf54
283897
RELM-α+ interstitial macrophages inflammatory arthritis synovium

C1QA
712
RELM-α+ interstitial macrophages inflammatory arthritis synovium

C1QB
713
RELM-α+ interstitial macrophages inflammatory arthritis synovium

C1QC
714
RELM-α+ interstitial macrophages inflammatory arthritis synovium

C4B
721
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CALM2
805
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CAVIN1
284119
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CCL24
6369
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD163
9332
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD302
9936
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD36
948
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD37
951
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD48
962
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD63
967
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD74
972
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CD81
975
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CDKN2C
1031
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CFH
3075
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CLEC10A
10462
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CLN8
2055
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CLTA
1211
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CLTB
1212
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CLTC
1213
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CNPY2
10330
RELM-α+ interstitial macrophages inflammatory arthritis synovium

COLEC12
81035
RELM-α+ interstitial macrophages inflammatory arthritis synovium

COMT
1312
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CRACR2B
283229
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CSF1R
1436
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CST3
1471
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CTSB
1508
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CTSC
1075
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CYB5A
1528
RELM-α+ interstitial macrophages inflammatory arthritis synovium

CYB5R3
1727
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DAB2
1601
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DGUOK
1716
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DHRS3
9249
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DNASE1L1
1774
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DOK2
9046
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DSE
29940
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DSTN
11034
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DUSP22
56940
RELM-α+ interstitial macrophages inflammatory arthritis synovium

DUSP6
1848
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ECM1
1893
RELM-α+ interstitial macrophages inflammatory arthritis synovium

EHD4
30844
RELM-α+ interstitial macrophages inflammatory arthritis synovium

EID1
23741
RELM-α+ interstitial macrophages inflammatory arthritis synovium

EPS15
2060
RELM-α+ interstitial macrophages inflammatory arthritis synovium

EPS8
2059
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ETV1
2115
RELM-α+ interstitial macrophages inflammatory arthritis synovium

EVI5
7813
RELM-α+ interstitial macrophages inflammatory arthritis synovium

F13A1
2162
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FAM46A
55603
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FCGR2A
2212
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FCGR2B
2213
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FCGRT
2217
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FCHO2
115548
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FEZ2
9637
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FGFR1
2260
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FKBP1A
2280
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FNTA
2339
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FOLR2
2350
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FOXN3
1112
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FOXP1
27086
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FRMD4B
23150
RELM-α+ interstitial macrophages inflammatory arthritis synovium

FXYD2
486
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GABARAPL1
23710
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GAS6
2621
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GAS7
8522
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GATM
2628
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GLTP
51228
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GLUL
2752
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GPR34
2857
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GSTM5
2949
RELM-α+ interstitial macrophages inflammatory arthritis synovium

GYPC
2995
RELM-α+ interstitial macrophages inflammatory arthritis synovium

H2AFV
94239
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HACD4
401494
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HCST
10870
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HEXA
3073
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HFE
3077
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HIGD2A
192286
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HIST1H2BI
8346
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HMGN1
3150
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HMOX2
3163
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HP1BP3
50809
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HPGD
3248
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HPGDS
27306
RELM-α+ interstitial macrophages inflammatory arthritis synovium

HPRT1
3251
RELM-α+ interstitial macrophages inflammatory arthritis synovium

IDH2
3418
RELM-α+ interstitial macrophages inflammatory arthritis synovium

IFI16
3428
RELM-α+ interstitial macrophages inflammatory arthritis synovium

IGF1
3479
RELM-α+ interstitial macrophages inflammatory arthritis synovium

IGFBP4
3487
RELM-α+ interstitial macrophages inflammatory arthritis synovium

IGHM
3507
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ITM2B
9445
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ITPRIPL2
162073
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ITSN1
6453
RELM-α+ interstitial macrophages inflammatory arthritis synovium

KIAA0100
9703
RELM-α+ interstitial macrophages inflammatory arthritis synovium

KIF1B
23095
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LAMP1
3916
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LAMP2
3920
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LAPTM4A
9741
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LEPROT
54741
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LGMN
5641
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LIFR
3977
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LIPA
3988
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LTC4S
4056
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LY96
23643
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LYL1
4066
RELM-α+ interstitial macrophages inflammatory arthritis synovium

LYVE1
10894
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MAF
4094
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MAFB
9935
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MALAT1
378938
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MAN1A1
4121
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MBNL1
4154
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MEF2C
4208
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MGST3
4259
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MID1IP1
58526
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MINDY2
54629
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MPP1
4354
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MRC1
4360
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MRFAP1
93621
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MTSS1
9788
RELM-α+ interstitial macrophages inflammatory arthritis synovium

MYO5A
4644
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NCOA4
8031
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NDFIP1
80762
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NDUFS7
374291
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NENF
29937
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NINJ1
4814
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NISCH
11188
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NPL
80896
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NR3C1
2908
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NRP1
8829
RELM-α+ interstitial macrophages inflammatory arthritis synovium

NUDT9
53343
RELM-α+ interstitial macrophages inflammatory arthritis synovium

OAT
4942
RELM-α+ interstitial macrophages inflammatory arthritis synovium

P2RY12
64805
RELM-α+ interstitial macrophages inflammatory arthritis synovium

P2RY6
5031
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PDLIM1
9124
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PDLIM4
8572
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PEA15
8682
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PEPD
5184
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PF4
5196
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PGRMC1
10857
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PINK1
65018
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PKIG
11142
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PLTP
5360
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PMP22
5376
RELM-α+ interstitial macrophages inflammatory arthritis synovium

POLR3GL
84265
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PON2
5445
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PPIA
5478
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PPP3CA
5530
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PRCP
5547
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PROS1
5627
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PRUNE2
158471
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PSD3
23362
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PTAFR
5724
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PTPN18
26469
RELM-α+ interstitial macrophages inflammatory arthritis synovium

PTS
5805
RELM-α+ interstitial macrophages inflammatory arthritis synovium

QPCT
25797
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RAB11A
8766
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RAB11FIP5
26056
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RAB31
11031
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RABAC1
10567
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RALBP1
10928
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RAPGEF6
51735
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RASGRP3
25780
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RASSF4
83937
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RFK
55312
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RGL1
23179
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RGS10
6001
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RGS18
64407
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RIN2
54453
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RNASE4
6038
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RNF13
11342
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RNF130
55819
RELM-α+ interstitial macrophages inflammatory arthritis synovium

RSRP1
57035
RELM-α+ interstitial macrophages inflammatory arthritis synovium

S100A1
6271
RELM-α+ interstitial macrophages inflammatory arthritis synovium

S1PR1
1901
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SBDS
51119
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SCAMP2
10066
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SDHC
6391
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SEC14L1
6397
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SEC62
7095
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SELENBP1
8991
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SELENOF
9403
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SELENOM
140606
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SELENOP
6414
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SERINC3
10955
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SERPINB1
1992
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SERPINB6
5269
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SESN1
27244
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SGPP1
81537
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SH3BGRL
6451
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SLC29A1
2030
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SLC48A1
55652
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SLC9A3R2
9351
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SLCO2B1
11309
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SMAGP
57228
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SMIM10L1
1E+08
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SNX2
6643
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SNX3
8724
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SNX5
27131
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SNX6
58533
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SNX8
29886
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SPRED1
161742
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SPTBN1
6711
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SSH2
85464
RELM-α+ interstitial macrophages inflammatory arthritis synovium

STAB1
23166
RELM-α+ interstitial macrophages inflammatory arthritis synovium

STARD8
9754
RELM-α+ interstitial macrophages inflammatory arthritis synovium

STK17B
9262
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SULF2
55959
RELM-α+ interstitial macrophages inflammatory arthritis synovium

SULT1A1
6817
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TACC1
6867
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TCF4
6925
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TCN2
6948
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TEP1
7011
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TEX264
51368
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TF
7018
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TGFBR2
7048
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TIMD4
91937
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TIMP2
7077
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TLR7
51284
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TMEM106A
113277
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TMEM141
85014
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TMEM37
140738
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TMEM50A
23585
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TMEM59
9528
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TNFAIP8L2
79626
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TNFSF12
8742
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TNS1
7145
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TPPP3
51673
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TPRG1L
127262
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TRIM47
91107
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TRMT1
55621
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TSC22D3
1831
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TSEN34
79042
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TSLP
85480
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TSPAN17
26262
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TSPAN4
7106
RELM-α+ interstitial macrophages inflammatory arthritis synovium

TXNIP
10628
RELM-α+ interstitial macrophages inflammatory arthritis synovium

UNC93B1
81622
RELM-α+ interstitial macrophages inflammatory arthritis synovium

VAT1
10493
RELM-α+ interstitial macrophages inflammatory arthritis synovium

VKORC1
79001
RELM-α+ interstitial macrophages inflammatory arthritis synovium

WWP1
11059
RELM-α+ interstitial macrophages inflammatory arthritis synovium

YPEL3
83719
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ZBTB20
26137
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ZCCHC6
79670
RELM-α+ interstitial macrophages inflammatory arthritis synovium

ALOX5
240
MHCII+ interstitial macrophages inflammatory arthritis synovium

AP2A2
161
MHCII+ interstitial macrophages inflammatory arthritis synovium

AQP1
358
MHCII+ interstitial macrophages inflammatory arthritis synovium

ATF3
467
MHCII+ interstitial macrophages inflammatory arthritis synovium

ATP2B1
490
MHCII+ interstitial macrophages inflammatory arthritis synovium

CCL24
6369
MHCII+ interstitial macrophages inflammatory arthritis synovium

CD163
9332
MHCII+ interstitial macrophages inflammatory arthritis synovium

CD36
948
MHCII+ interstitial macrophages inflammatory arthritis synovium

CD81
975
MHCII+ interstitial macrophages inflammatory arthritis synovium

CD93
22918
MHCII+ interstitial macrophages inflammatory arthritis synovium

CLEC10A
10462
MHCII+ interstitial macrophages inflammatory arthritis synovium

CLEC12A
160364
MHCII+ interstitial macrophages inflammatory arthritis synovium

CLTC
1213
MHCII+ interstitial macrophages inflammatory arthritis synovium

DAB2
1601
MHCII+ interstitial macrophages inflammatory arthritis synovium

DOK2
9046
MHCII+ interstitial macrophages inflammatory arthritis synovium

DSE
29940
MHCII+ interstitial macrophages inflammatory arthritis synovium

EGR1
1958
MHCII+ interstitial macrophages inflammatory arthritis synovium

EHD4
30844
MHCII+ interstitial macrophages inflammatory arthritis synovium

FOSB
2354
MHCII+ interstitial macrophages inflammatory arthritis synovium

FRMD4B
23150
MHCII+ interstitial macrophages inflammatory arthritis synovium

FXYD2
486
MHCII+ interstitial macrophages inflammatory arthritis synovium

GAS7
8522
MHCII+ interstitial macrophages inflammatory arthritis synovium

HLA-DQA1
3117
MHCII+ interstitial macrophages inflammatory arthritis synovium

HLA-DQB1
3119
MHCII+ interstitial macrophages inflammatory arthritis synovium

HLA-DRB5
3127
MHCII+ interstitial macrophages inflammatory arthritis synovium

HSPA1A
3303
MHCII+ interstitial macrophages inflammatory arthritis synovium

IER2
9592
MHCII+ interstitial macrophages inflammatory arthritis synovium

IGF1
3479
MHCII+ interstitial macrophages inflammatory arthritis synovium

IGFBP4
3487
MHCII+ interstitial macrophages inflammatory arthritis synovium

IGHM
3507
MHCII+ interstitial macrophages inflammatory arthritis synovium

IRF2BP2
359948
MHCII+ interstitial macrophages inflammatory arthritis synovium

JUN
3725
MHCII+ interstitial macrophages inflammatory arthritis synovium

JUND
3727
MHCII+ interstitial macrophages inflammatory arthritis synovium

KLF2
10365
MHCII+ interstitial macrophages inflammatory arthritis synovium

KLF4
9314
MHCII+ interstitial macrophages inflammatory arthritis synovium

KLF6
1316
MHCII+ interstitial macrophages inflammatory arthritis synovium

LIFR
3977
MHCII+ interstitial macrophages inflammatory arthritis synovium

LPL
4023
MHCII+ interstitial macrophages inflammatory arthritis synovium

LYZ
4069
MHCII+ interstitial macrophages inflammatory arthritis synovium

MAF
4094
MHCII+ interstitial macrophages inflammatory arthritis synovium

MAFB
9935
MHCII+ interstitial macrophages inflammatory arthritis synovium

MALAT1
378938
MHCII+ interstitial macrophages inflammatory arthritis synovium

MARCKSL1
65108
MHCII+ interstitial macrophages inflammatory arthritis synovium

MEF2C
4208
MHCII+ interstitial macrophages inflammatory arthritis synovium

METRNL
284207
MHCII+ interstitial macrophages inflammatory arthritis synovium

MRC1
4360
MHCII+ interstitial macrophages inflammatory arthritis synovium

MS4A7
58475
MHCII+ interstitial macrophages inflammatory arthritis synovium

MT-CO1
4512
MHCII+ interstitial macrophages inflammatory arthritis synovium

MT1A
4489
MHCII+ interstitial macrophages inflammatory arthritis synovium

MT2A
4502
MHCII+ interstitial macrophages inflammatory arthritis synovium

MTSS1
9788
MHCII+ interstitial macrophages inflammatory arthritis synovium

NFKBIZ
64332
MHCII+ interstitial macrophages inflammatory arthritis synovium

PF4
5196
MHCII+ interstitial macrophages inflammatory arthritis synovium

PPP3CA
5530
MHCII+ interstitial macrophages inflammatory arthritis synovium

RAB7B
338382
MHCII+ interstitial macrophages inflammatory arthritis synovium

RBPJ
3516
MHCII+ interstitial macrophages inflammatory arthritis synovium

RND3
390
MHCII+ interstitial macrophages inflammatory arthritis synovium

RTN4
57142
MHCII+ interstitial macrophages inflammatory arthritis synovium

SDC3
9672
MHCII+ interstitial macrophages inflammatory arthritis synovium

SELENOP
6414
MHCII+ interstitial macrophages inflammatory arthritis synovium

SERINC3
10955
MHCII+ interstitial macrophages inflammatory arthritis synovium

SLAMF9
89886
MHCII+ interstitial macrophages inflammatory arthritis synovium

SNX5
27131
MHCII+ interstitial macrophages inflammatory arthritis synovium

TMEM176A
55365
MHCII+ interstitial macrophages inflammatory arthritis synovium

TMEM176B
28959
MHCII+ interstitial macrophages inflammatory arthritis synovium

TUBB2A
7280
MHCII+ interstitial macrophages inflammatory arthritis synovium

TXNIP
10628
MHCII+ interstitial macrophages inflammatory arthritis synovium

WNK1
65125
MHCII+ interstitial macrophages inflammatory arthritis synovium

WWP1
11059
MHCII+ interstitial macrophages inflammatory arthritis synovium

ZFP36L1
677
MHCII+ interstitial macrophages inflammatory arthritis synovium

ACOT7
11332
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ACP5
54
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ACTR2
10097
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ADAM8
101
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ADSSL1
122622
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

AGPAT4
56895
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

AGPAT5
55326
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

AK2
204
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

AK6
1.02E+08
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ALDOA
226
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ANP32B
10541
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ANXA1
301
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ANXA2
302
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ANXA5
308
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

APEX1
328
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

APOBEC1
339
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

APRT
353
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ARF6
382
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATOX1
475
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP5F1E
514
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP5G1
516
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP5G3
518
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP5L
10632
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP5ME
521
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP5O
539
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP6V0E1
8992
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP6V1A
523
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP6V1B2
526
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP6V1C1
528
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP6V1D
51382
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP6V1E1
529
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATP6V1G1
9550
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ATPIF1
93974
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

AVPI1
60370
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

AZIN1
51582
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

B4GALT1
2683
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

BANF1
8815
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

BAX
581
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

BDH2
56898
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

BHLHE40
8553
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

BOLA2
552900
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

BTG1
694
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

C14orf2
9556
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

C1QBP
708
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

C6orf62
81688
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

C8orf59
401466
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CALM1
801
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CAV1
857
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CAV2
858
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CCT2
10576
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CCT3
7203
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CCT8
10694
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CD44
960
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CHCHD2
51142
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CHCHD4
131474
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CITED2
10370
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CKAP4
10970
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CLEC4D
338339
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CLEC4E
26253
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CLEC6A
93978
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

COPS9
150678
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

COX17
10063
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

COX5A
9377
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

COX6B1
1340
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

COX7A2
1347
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

COX7B
1349
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

COX7C
1350
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CSTB
1476
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CTSK
1513
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CTSV
1515
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CXCL16
58191
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CXCL3
2921
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

CYCS
54205
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

DDT
1652
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

DNAJC2
27000
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

DTYMK
1841
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EBNA1BP2
10969
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EEF1E1
9521
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EEF1G
1937
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EFHD2
79180
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EHD1
10938
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF1AY
9086
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF2S1
1965
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF2S2
8894
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF3J
8669
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF4A1
1973
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF4G2
1982
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF5A
1984
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EIF6
3692
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EMC6
83460
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ENO1
2023
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ERH
2079
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ESD
2098
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

EZR
7430
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

FABP5
2171
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

FAM129B
64855
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

FAM162A
26355
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

FBL
2091
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

FCF1
51077
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

FN1
2335
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

FURIN
5045
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

G3BP1
10146
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

GAPDH
2597
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

GCSH
2653
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

GLRX
2745
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

GNA13
10672
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

GNGT2
2793
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

GNL3
26354
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

GPR137B
7107
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HDGF
3068
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HIF1A
3091
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HIGD1A
25994
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HILPDA
29923
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HNRNPA0
10949
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HNRNPA1
3178
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HNRNPAB
3182
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HSP90AA1
3320
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HSP90AB1
3326
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HSPA9
3313
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HSPD1
3329
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

HSPE1
3336
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ID2
3398
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

IFRD1
3475
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

IL1RN
3557
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

IMPDH2
3615
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ITGA5
3678
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ITGAV
3685
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

JARID2
3720
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

KCNN4
3783
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LASP1
3927
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LDHA
3939
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LFNG
3955
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LGALS1
3956
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LGALS3
3958
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LLPH
84298
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LMNA
4000
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LOC102724828
1.03E+08
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LPL
4023
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

LSM7
51690
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

M6PR
4074
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MAGOH
4116
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MALT1
10892
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MAP4K4
9448
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MCL1
4170
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MDH2
4191
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MDM2
4193
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MIF
4282
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MMP14
4323
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MMP19
4327
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MRPL12
6182
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MRPL20
55052
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MRPL52
122704
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MRPL54
116541
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MRPS14
63931
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MRPS28
28957
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MRTO4
51154
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MS4A7
58475
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MT-ATP8
4509
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MT-CYB
4519
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MT-ND1
4535
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

MT-ND3
4537
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NAA50
80218
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NCEH1
57552
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NCL
4691
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NDUFAB1
4706
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NDUFB6
4712
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NDUFC1
4717
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NDUFC2
4718
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NDUFS6
4726
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NFATC1
4772
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NFKBIA
4792
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NHP2
55651
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NIP7
51388
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NME1
4830
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NOLC1
9221
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NOP10
55505
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NOP56
10528
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NOP58
51602
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NPM1
4869
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NPM3
10360
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NRP2
8828
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NSD2
7468
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NSUN2
54888
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NUDCD2
134492
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

NUS1
116150
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ODC1
4953
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

OSBPL8
114882
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PA2G4
5036
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PCBP1
5093
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PDPN
10630
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PFDN4
5203
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PFN1
5216
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PGAM1
5223
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PGK1
5230
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PHB2
11331
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PIK3R5
23533
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PKM
5315
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PLIN2
123
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PLXND1
23129
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PNO1
56902
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

POLR2K
5440
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

POLR2L
5441
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PPA1
5464
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PPP2CA
5515
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PRMT1
3276
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PSMA3
5684
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PSMA6
5687
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PSMB5
5693
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PSMB6
5694
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PSMB7
5695
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PSMD14
10213
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PTBP3
9991
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

PTMA
5757
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RACK1
10399
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RAI14
26064
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RALA
5898
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RAN
5901
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RANBP1
5902
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RBM3
5935
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RBX1
9978
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RGCC
28984
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RNF149
284996
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RNF19B
127544
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ROMO1
140823
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL12
6136
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL22
6146
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL22L1
200916
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL23
9349
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL27
6155
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL35
11224
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL36A
6173
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL36AL
6166
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL37A
6168
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL38
6169
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL39
6170
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPL5
6125
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPLP1
6176
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPLP2
6181
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS10
6204
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS12
6206
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS15A
6210
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS17
6218
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS18
6222
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS19
6223
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS2
6187
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS21
6227
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS26
6231
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS27A
6233
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS27L
51065
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS3
6188
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS3A
6189
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

RPS8
6202
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

S100A10
6281
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

S100A11
6282
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

S100A4
6275
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SDC1
6382
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SDC4
6385
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SEC61B
10952
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SEMA4D
10507
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SERBP1
26135
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SET
6418
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SFPQ
6421
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SGK1
6446
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SLC37A2
219855
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SLC43A2
124935
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SLIRP
81892
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SMS
6611
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SNHG6
641638
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SNRPD1
6632
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SNRPD2
6633
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SNRPD3
6634
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SNRPE
6635
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SNRPF
6636
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SNU13
4809
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SOD1
6647
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SOD2
6648
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SPP1
6696
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SQSTM1
8878
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SRSF3
6428
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

SRSF7
6432
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TAF1D
79101
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TCIRG1
10312
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TCP1
6950
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TCTEX1D2
255758
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TIMM10
26519
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TIMM13
26517
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TIMM17A
10440
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TIMM8A
1678
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TIMP1
7076
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TNFAIP2
7127
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TNFAIP3
7128
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TOMM20
9804
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TOMM40
10452
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TOMM5
401505
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TPI1
7167
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TPM1
7168
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TPT1
7178
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TRAF1
7185
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TSC22D1
8848
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TUBA1C
84790
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TUBB4B
10383
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TUBB6
84617
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TXN
7295
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

TXNRD1
7296
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

U2AF1
7307
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

UBE2A
7319
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

UBE2L3
7332
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

UFM1
51569
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

UQCR10
29796
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

UQCR11
10975
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

UQCRB
7381
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

UQCRQ
27089
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

USMG5
84833
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

USP50
373509
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

VIM
7431
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

YBX1
4904
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

YBX3
8531
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

YWHAG
7532
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

YWHAZ
7534
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ZNF593
51042
CCR2+ARG1+ infiltrating macrophages inflammatory arthritis

synovium

ACOT7
11332
MHCII high dendritic cells inflammatory arthritis synovium

ACTG1
71
MHCII high dendritic cells inflammatory arthritis synovium

ASS1
445
MHCII high dendritic cells inflammatory arthritis synovium

ATOX1
475
MHCII high dendritic cells inflammatory arthritis synovium

ATP5F1
515
MHCII high dendritic cells inflammatory arthritis synovium

AVPI1
60370
MHCII high dendritic cells inflammatory arthritis synovium

B4GALNT1
2583
MHCII high dendritic cells inflammatory arthritis synovium

BATF3
55509
MHCII high dendritic cells inflammatory arthritis synovium

BCL2A1
597
MHCII high dendritic cells inflammatory arthritis synovium

BHLHE40
8553
MHCII high dendritic cells inflammatory arthritis synovium

BLOC1S2
282991
MHCII high dendritic cells inflammatory arthritis synovium

BRI3BP
140707
MHCII high dendritic cells inflammatory arthritis synovium

BTG2
7832
MHCII high dendritic cells inflammatory arthritis synovium

C15orf48
84419
MHCII high dendritic cells inflammatory arthritis synovium

C1orf21
81563
MHCII high dendritic cells inflammatory arthritis synovium

C1orf54
79630
MHCII high dendritic cells inflammatory arthritis synovium

CASP6
839
MHCII high dendritic cells inflammatory arthritis synovium

CBFA2T3
863
MHCII high dendritic cells inflammatory arthritis synovium

CCDC88A
55704
MHCII high dendritic cells inflammatory arthritis synovium

CCND1
595
MHCII high dendritic cells inflammatory arthritis synovium

CCND3
896
MHCII high dendritic cells inflammatory arthritis synovium

CCR2
729230
MHCII high dendritic cells inflammatory arthritis synovium

CD24
10013941
MHCII high dendritic cells inflammatory arthritis synovium

CD47
961
MHCII high dendritic cells inflammatory arthritis synovium

CD52
1043
MHCII high dendritic cells inflammatory arthritis synovium

CD72
971
MHCII high dendritic cells inflammatory arthritis synovium

CD74
972
MHCII high dendritic cells inflammatory arthritis synovium

CD86
942
MHCII high dendritic cells inflammatory arthritis synovium

CDKN2D
1032
MHCII high dendritic cells inflammatory arthritis synovium

CFP
5199
MHCII high dendritic cells inflammatory arthritis synovium

CKB
1152
MHCII high dendritic cells inflammatory arthritis synovium

CLEC10A
10462
MHCII high dendritic cells inflammatory arthritis synovium

CLEC6A
93978
MHCII high dendritic cells inflammatory arthritis synovium

CNN2
1265
MHCII high dendritic cells inflammatory arthritis synovium

CORO1A
11151
MHCII high dendritic cells inflammatory arthritis synovium

CSF2RB
1439
MHCII high dendritic cells inflammatory arthritis synovium

CSRNP1
64651
MHCII high dendritic cells inflammatory arthritis synovium

CTSH
1512
MHCII high dendritic cells inflammatory arthritis synovium

CXCL16
58191
MHCII high dendritic cells inflammatory arthritis synovium

CYTIP
9595
MHCII high dendritic cells inflammatory arthritis synovium

DAPP1
27071
MHCII high dendritic cells inflammatory arthritis synovium

DBNL
28988
MHCII high dendritic cells inflammatory arthritis synovium

DDOST
1650
MHCII high dendritic cells inflammatory arthritis synovium

DENND4A
10260
MHCII high dendritic cells inflammatory arthritis synovium

DPYSL2
1808
MHCII high dendritic cells inflammatory arthritis synovium

EEF1B2
1933
MHCII high dendritic cells inflammatory arthritis synovium

EEF1G
1937
MHCII high dendritic cells inflammatory arthritis synovium

EIF3F
8665
MHCII high dendritic cells inflammatory arthritis synovium

EMB
133418
MHCII high dendritic cells inflammatory arthritis synovium

ETV3
2117
MHCII high dendritic cells inflammatory arthritis synovium

EVA1B
55194
MHCII high dendritic cells inflammatory arthritis synovium

FABP5
2171
MHCII high dendritic cells inflammatory arthritis synovium

FAM129A
116496
MHCII high dendritic cells inflammatory arthritis synovium

FBL
2091
MHCII high dendritic cells inflammatory arthritis synovium

FDPS
2224
MHCII high dendritic cells inflammatory arthritis synovium

FGL2
10875
MHCII high dendritic cells inflammatory arthritis synovium

FGR
2268
MHCII high dendritic cells inflammatory arthritis synovium

FH
2271
MHCII high dendritic cells inflammatory arthritis synovium

GLIPR2
152007
MHCII high dendritic cells inflammatory arthritis synovium

GM2A
2760
MHCII high dendritic cells inflammatory arthritis synovium

GPR132
29933
MHCII high dendritic cells inflammatory arthritis synovium

GPR171
29909
MHCII high dendritic cells inflammatory arthritis synovium

GRK3
157
MHCII high dendritic cells inflammatory arthritis synovium

H2AFY
9555
MHCII high dendritic cells inflammatory arthritis synovium

H2AFZ
3015
MHCII high dendritic cells inflammatory arthritis synovium

HLA-DMA
3108
MHCII high dendritic cells inflammatory arthritis synovium

HLA-DMB
3109
MHCII high dendritic cells inflammatory arthritis synovium

HLA-DQA1
3117
MHCII high dendritic cells inflammatory arthritis synovium

HLA-DQB1
3119
MHCII high dendritic cells inflammatory arthritis synovium

HLA-DRB5
3127
MHCII high dendritic cells inflammatory arthritis synovium

HM13
81502
MHCII high dendritic cells inflammatory arthritis synovium

HSD17B10
3028
MHCII high dendritic cells inflammatory arthritis synovium

HSPA1A
3303
MHCII high dendritic cells inflammatory arthritis synovium

ID2
3398
MHCII high dendritic cells inflammatory arthritis synovium

IFITM2
10581
MHCII high dendritic cells inflammatory arthritis synovium

IFNGR1
3459
MHCII high dendritic cells inflammatory arthritis synovium

IL1B
3553
MHCII high dendritic cells inflammatory arthritis synovium

IL1R2
7850
MHCII high dendritic cells inflammatory arthritis synovium

IL2RG
3561
MHCII high dendritic cells inflammatory arthritis synovium

ITGAX
3687
MHCII high dendritic cells inflammatory arthritis synovium

ITGB7
3695
MHCII high dendritic cells inflammatory arthritis synovium

JAK2
3717
MHCII high dendritic cells inflammatory arthritis synovium

JAML
120425
MHCII high dendritic cells inflammatory arthritis synovium

KIAA0040
9674
MHCII high dendritic cells inflammatory arthritis synovium

KLRB1
3820
MHCII high dendritic cells inflammatory arthritis synovium

KLRD1
3824
MHCII high dendritic cells inflammatory arthritis synovium

LACTB
114294
MHCII high dendritic cells inflammatory arthritis synovium

LIMD2
80774
MHCII high dendritic cells inflammatory arthritis synovium

LMNB1
4001
MHCII high dendritic cells inflammatory arthritis synovium

LMO4
8543
MHCII high dendritic cells inflammatory arthritis synovium

LSP1
4046
MHCII high dendritic cells inflammatory arthritis synovium

LSR
51599
MHCII high dendritic cells inflammatory arthritis synovium

LTB4R
1241
MHCII high dendritic cells inflammatory arthritis synovium

MARCKSL1
65108
MHCII high dendritic cells inflammatory arthritis synovium

MED30
90390
MHCII high dendritic cells inflammatory arthritis synovium

MPC1
51660
MHCII high dendritic cells inflammatory arthritis synovium

MYD88
4615
MHCII high dendritic cells inflammatory arthritis synovium

MYO1G
64005
MHCII high dendritic cells inflammatory arthritis synovium

NAAA
27163
MHCII high dendritic cells inflammatory arthritis synovium

NAGA
4668
MHCII high dendritic cells inflammatory arthritis synovium

NAPSA
9476
MHCII high dendritic cells inflammatory arthritis synovium

NDUFA6
4700
MHCII high dendritic cells inflammatory arthritis synovium

NR4A2
4929
MHCII high dendritic cells inflammatory arthritis synovium

OLFM1
10439
MHCII high dendritic cells inflammatory arthritis synovium

PAK1
5058
MHCII high dendritic cells inflammatory arthritis synovium

PDLIM1
9124
MHCII high dendritic cells inflammatory arthritis synovium

PFKP
5214
MHCII high dendritic cells inflammatory arthritis synovium

PIM1
5292
MHCII high dendritic cells inflammatory arthritis synovium

PKIB
5570
MHCII high dendritic cells inflammatory arthritis synovium

PLBD1
79887
MHCII high dendritic cells inflammatory arthritis synovium

PLSCR1
5359
MHCII high dendritic cells inflammatory arthritis synovium

PMVK
10654
MHCII high dendritic cells inflammatory arthritis synovium

PRCP
5547
MHCII high dendritic cells inflammatory arthritis synovium

PRKAR2A
5576
MHCII high dendritic cells inflammatory arthritis synovium

PSMB8
5696
MHCII high dendritic cells inflammatory arthritis synovium

PSMB9
5698
MHCII high dendritic cells inflammatory arthritis synovium

PSME1
5720
MHCII high dendritic cells inflammatory arthritis synovium

PTPRC
5788
MHCII high dendritic cells inflammatory arthritis synovium

RAMP1
10267
MHCII high dendritic cells inflammatory arthritis synovium

RARA
5914
MHCII high dendritic cells inflammatory arthritis synovium

REL
5966
MHCII high dendritic cells inflammatory arthritis synovium

RGS1
5996
MHCII high dendritic cells inflammatory arthritis synovium

RIN3
79890
MHCII high dendritic cells inflammatory arthritis synovium

ROGDI
79641
MHCII high dendritic cells inflammatory arthritis synovium

RPL13
6137
MHCII high dendritic cells inflammatory arthritis synovium

RPL14
9045
MHCII high dendritic cells inflammatory arthritis synovium

RPL15
6138
MHCII high dendritic cells inflammatory arthritis synovium

RPL17
6139
MHCII high dendritic cells inflammatory arthritis synovium

RPL32
6161
MHCII high dendritic cells inflammatory arthritis synovium

RPL39
6170
MHCII high dendritic cells inflammatory arthritis synovium

RPL4
6124
MHCII high dendritic cells inflammatory arthritis synovium

RPLP0
6175
MHCII high dendritic cells inflammatory arthritis synovium

RPS11
6205
MHCII high dendritic cells inflammatory arthritis synovium

RPS16
6217
MHCII high dendritic cells inflammatory arthritis synovium

RPS18
6222
MHCII high dendritic cells inflammatory arthritis synovium

RPS19
6223
MHCII high dendritic cells inflammatory arthritis synovium

RPS4Y1
6192
MHCII high dendritic cells inflammatory arthritis synovium

RPS6
6194
MHCII high dendritic cells inflammatory arthritis synovium

RPS7
6201
MHCII high dendritic cells inflammatory arthritis synovium

RPSA
3921
MHCII high dendritic cells inflammatory arthritis synovium

S100A11
6282
MHCII high dendritic cells inflammatory arthritis synovium

SCAND1
51282
MHCII high dendritic cells inflammatory arthritis synovium

SDF2L1
23753
MHCII high dendritic cells inflammatory arthritis synovium

SEC61B
10952
MHCII high dendritic cells inflammatory arthritis synovium

SELPLG
6404
MHCII high dendritic cells inflammatory arthritis synovium

SLAMF9
89886
MHCII high dendritic cells inflammatory arthritis synovium

SPINT1
6692
MHCII high dendritic cells inflammatory arthritis synovium

SRI
6717
MHCII high dendritic cells inflammatory arthritis synovium

ST3GAL4
6484
MHCII high dendritic cells inflammatory arthritis synovium

SUB1
10923
MHCII high dendritic cells inflammatory arthritis synovium

SYNGR2
9144
MHCII high dendritic cells inflammatory arthritis synovium

TAP1
6890
MHCII high dendritic cells inflammatory arthritis synovium

TAX1BP3
30851
MHCII high dendritic cells inflammatory arthritis synovium

TES
26136
MHCII high dendritic cells inflammatory arthritis synovium

TIMP1
7076
MHCII high dendritic cells inflammatory arthritis synovium

TMEM123
114908
MHCII high dendritic cells inflammatory arthritis synovium

TMEM173
340061
MHCII high dendritic cells inflammatory arthritis synovium

TMEM176A
55365
MHCII high dendritic cells inflammatory arthritis synovium

TMEM176B
28959
MHCII high dendritic cells inflammatory arthritis synovium

TMSB10
9168
MHCII high dendritic cells inflammatory arthritis synovium

TNIP3
79931
MHCII high dendritic cells inflammatory arthritis synovium

TRAF1
7185
MHCII high dendritic cells inflammatory arthritis synovium

TRAPPC5
126003
MHCII high dendritic cells inflammatory arthritis synovium

TSPAN13
27075
MHCII high dendritic cells inflammatory arthritis synovium

TUBA1A
7846
MHCII high dendritic cells inflammatory arthritis synovium

UNC119
9094
MHCII high dendritic cells inflammatory arthritis synovium

UVRAG
7405
MHCII high dendritic cells inflammatory arthritis synovium

VASP
7408
MHCII high dendritic cells inflammatory arthritis synovium

VRK1
7443
MHCII high dendritic cells inflammatory arthritis synovium

YWHAH
7533
MHCII high dendritic cells inflammatory arthritis synovium

ZYX
7791
MHCII high dendritic cells inflammatory arthritis synovium

ACOT7
11332
STMN1+ proliferating cells inflammatory arthritis synovium

ACP5
54
STMN1+ proliferating cells inflammatory arthritis synovium

ACTL6A
86
STMN1+ proliferating cells inflammatory arthritis synovium

ACTN4
81
STMN1+ proliferating cells inflammatory arthritis synovium

ADSS
159
STMN1+ proliferating cells inflammatory arthritis synovium

AGPAT5
55326
STMN1+ proliferating cells inflammatory arthritis synovium

AIMP2
7965
STMN1+ proliferating cells inflammatory arthritis synovium

AK2
204
STMN1+ proliferating cells inflammatory arthritis synovium

AK6
1.02E+08
STMN1+ proliferating cells inflammatory arthritis synovium

ALYREF
10189
STMN1+ proliferating cells inflammatory arthritis synovium

ANAPC11
51529
STMN1+ proliferating cells inflammatory arthritis synovium

ANAPC5
51433
STMN1+ proliferating cells inflammatory arthritis synovium

ANLN
54443
STMN1+ proliferating cells inflammatory arthritis synovium

ANP32B
10541
STMN1+ proliferating cells inflammatory arthritis synovium

ANP32E
81611
STMN1+ proliferating cells inflammatory arthritis synovium

AP1S1
1174
STMN1+ proliferating cells inflammatory arthritis synovium

APEX1
328
STMN1+ proliferating cells inflammatory arthritis synovium

ARHGAP11A
9824
STMN1+ proliferating cells inflammatory arthritis synovium

ARID1A
8289
STMN1+ proliferating cells inflammatory arthritis synovium

ARL6IP1
23204
STMN1+ proliferating cells inflammatory arthritis synovium

ARL8B
55207
STMN1+ proliferating cells inflammatory arthritis synovium

ARPP19
10776
STMN1+ proliferating cells inflammatory arthritis synovium

ASF1B
55723
STMN1+ proliferating cells inflammatory arthritis synovium

ASPM
259266
STMN1+ proliferating cells inflammatory arthritis synovium

ATAD2
29028
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5B
506
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5F1
515
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5G1
516
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5G2
517
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5G3
518
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5J2
9551
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5L
10632
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5ME
521
STMN1+ proliferating cells inflammatory arthritis synovium

ATP5O
539
STMN1+ proliferating cells inflammatory arthritis synovium

ATPIF1
93974
STMN1+ proliferating cells inflammatory arthritis synovium

AURKA
6790
STMN1+ proliferating cells inflammatory arthritis synovium

AURKB
9212
STMN1+ proliferating cells inflammatory arthritis synovium

BAG1
573
STMN1+ proliferating cells inflammatory arthritis synovium

BANF1
8815
STMN1+ proliferating cells inflammatory arthritis synovium

BAZ1A
11177
STMN1+ proliferating cells inflammatory arthritis synovium

BCKDK
10295
STMN1+ proliferating cells inflammatory arthritis synovium

BDH2
56898
STMN1+ proliferating cells inflammatory arthritis synovium

BEX3
27018
STMN1+ proliferating cells inflammatory arthritis synovium

BICD2
23299
STMN1+ proliferating cells inflammatory arthritis synovium

BIRC2
329
STMN1+ proliferating cells inflammatory arthritis synovium

BIRC5
332
STMN1+ proliferating cells inflammatory arthritis synovium

BOLA2
552900
STMN1+ proliferating cells inflammatory arthritis synovium

BOLA3
388962
STMN1+ proliferating cells inflammatory arthritis synovium

BRD7
29117
STMN1+ proliferating cells inflammatory arthritis synovium

BRIX1
55299
STMN1+ proliferating cells inflammatory arthritis synovium

BUB1
699
STMN1+ proliferating cells inflammatory arthritis synovium

BUB1B
701
STMN1+ proliferating cells inflammatory arthritis synovium

BUB3
9184
STMN1+ proliferating cells inflammatory arthritis synovium

C11orf58
10944
STMN1+ proliferating cells inflammatory arthritis synovium

C14orf2
9556
STMN1+ proliferating cells inflammatory arthritis synovium

C1QBP
708
STMN1+ proliferating cells inflammatory arthritis synovium

C20orf24
55969
STMN1+ proliferating cells inflammatory arthritis synovium

C4ORF3
401152
STMN1+ proliferating cells inflammatory arthritis synovium

C6orf62
81688
STMN1+ proliferating cells inflammatory arthritis synovium

CACYBP
27101
STMN1+ proliferating cells inflammatory arthritis synovium

CALM3
808
STMN1+ proliferating cells inflammatory arthritis synovium

CAPRIN1
4076
STMN1+ proliferating cells inflammatory arthritis synovium

CAV1
857
STMN1+ proliferating cells inflammatory arthritis synovium

CAV2
858
STMN1+ proliferating cells inflammatory arthritis synovium

CBFB
865
STMN1+ proliferating cells inflammatory arthritis synovium

CBX1
10951
STMN1+ proliferating cells inflammatory arthritis synovium

CBX3
11335
STMN1+ proliferating cells inflammatory arthritis synovium

CBX5
23468
STMN1+ proliferating cells inflammatory arthritis synovium

CCDC25
55246
STMN1+ proliferating cells inflammatory arthritis synovium

CCDC34
91057
STMN1+ proliferating cells inflammatory arthritis synovium

CCDC88A
55704
STMN1+ proliferating cells inflammatory arthritis synovium

CCNA2
890
STMN1+ proliferating cells inflammatory arthritis synovium

CCNB1
891
STMN1+ proliferating cells inflammatory arthritis synovium

CCNB2
9133
STMN1+ proliferating cells inflammatory arthritis synovium

CCND1
595
STMN1+ proliferating cells inflammatory arthritis synovium

CCNE2
9134
STMN1+ proliferating cells inflammatory arthritis synovium

CCT2
10576
STMN1+ proliferating cells inflammatory arthritis synovium

CCT3
7203
STMN1+ proliferating cells inflammatory arthritis synovium

CCT7
10574
STMN1+ proliferating cells inflammatory arthritis synovium

CCT8
10694
STMN1+ proliferating cells inflammatory arthritis synovium

CD44
960
STMN1+ proliferating cells inflammatory arthritis synovium

CDC20
991
STMN1+ proliferating cells inflammatory arthritis synovium

CDC45
8318
STMN1+ proliferating cells inflammatory arthritis synovium

CDCA2
157313
STMN1+ proliferating cells inflammatory arthritis synovium

CDCA3
83461
STMN1+ proliferating cells inflammatory arthritis synovium

CDCA4
55038
STMN1+ proliferating cells inflammatory arthritis synovium

CDCA8
55143
STMN1+ proliferating cells inflammatory arthritis synovium

CDK1
983
STMN1+ proliferating cells inflammatory arthritis synovium

CDK4
1019
STMN1+ proliferating cells inflammatory arthritis synovium

CDKN2C
1031
STMN1+ proliferating cells inflammatory arthritis synovium

CDKN2D
1032
STMN1+ proliferating cells inflammatory arthritis synovium

CDKN3
1033
STMN1+ proliferating cells inflammatory arthritis synovium

CENPA
1058
STMN1+ proliferating cells inflammatory arthritis synovium

CENPE
1062
STMN1+ proliferating cells inflammatory arthritis synovium

CENPF
1063
STMN1+ proliferating cells inflammatory arthritis synovium

CENPH
64946
STMN1+ proliferating cells inflammatory arthritis synovium

CENPK
64105
STMN1+ proliferating cells inflammatory arthritis synovium

CENPM
79019
STMN1+ proliferating cells inflammatory arthritis synovium

CENPQ
55166
STMN1+ proliferating cells inflammatory arthritis synovium

CENPS
370708
STMN1+ proliferating cells inflammatory arthritis synovium

CENPW
387103
STMN1+ proliferating cells inflammatory arthritis synovium

CENPX
201254
STMN1+ proliferating cells inflammatory arthritis synovium

CEP55
55165
STMN1+ proliferating cells inflammatory arthritis synovium

CEP83
51134
STMN1+ proliferating cells inflammatory arthritis synovium

CHCHD1
118487
STMN1+ proliferating cells inflammatory arthritis synovium

CHCHD10
400916
STMN1+ proliferating cells inflammatory arthritis synovium

CISD1
55847
STMN1+ proliferating cells inflammatory arthritis synovium

CITED2
10370
STMN1+ proliferating cells inflammatory arthritis synovium

CKAP2
26586
STMN1+ proliferating cells inflammatory arthritis synovium

CKAP2L
150468
STMN1+ proliferating cells inflammatory arthritis synovium

CKAP4
10970
STMN1+ proliferating cells inflammatory arthritis synovium

CKAP5
9793
STMN1+ proliferating cells inflammatory arthritis synovium

CKS1B
1163
STMN1+ proliferating cells inflammatory arthritis synovium

CKS2
1164
STMN1+ proliferating cells inflammatory arthritis synovium

CLIC4
25932
STMN1+ proliferating cells inflammatory arthritis synovium

CLSPN
63967
STMN1+ proliferating cells inflammatory arthritis synovium

CMC2
56942
STMN1+ proliferating cells inflammatory arthritis synovium

CNIH4
29097
STMN1+ proliferating cells inflammatory arthritis synovium

CNOT6
57472
STMN1+ proliferating cells inflammatory arthritis synovium

COPS9
150678
STMN1+ proliferating cells inflammatory arthritis synovium

COQ7
10229
STMN1+ proliferating cells inflammatory arthritis synovium

COX20
116228
STMN1+ proliferating cells inflammatory arthritis synovium

COX5A
9377
STMN1+ proliferating cells inflammatory arthritis synovium

COX5B
1329
STMN1+ proliferating cells inflammatory arthritis synovium

COX6C
1345
STMN1+ proliferating cells inflammatory arthritis synovium

COX7A2
1347
STMN1+ proliferating cells inflammatory arthritis synovium

COX7C
1350
STMN1+ proliferating cells inflammatory arthritis synovium

CPSF2
53981
STMN1+ proliferating cells inflammatory arthritis synovium

CRIP2
1397
STMN1+ proliferating cells inflammatory arthritis synovium

CSRP1
1465
STMN1+ proliferating cells inflammatory arthritis synovium

CTCF
10664
STMN1+ proliferating cells inflammatory arthritis synovium

CTNNB1
1499
STMN1+ proliferating cells inflammatory arthritis synovium

CTSK
1513
STMN1+ proliferating cells inflammatory arthritis synovium

CYB5R3
1727
STMN1+ proliferating cells inflammatory arthritis synovium

CYC1
1537
STMN1+ proliferating cells inflammatory arthritis synovium

CYCS
54205
STMN1+ proliferating cells inflammatory arthritis synovium

DAZAP1
26528
STMN1+ proliferating cells inflammatory arthritis synovium

DBF4
10926
STMN1+ proliferating cells inflammatory arthritis synovium

DCK
1633
STMN1+ proliferating cells inflammatory arthritis synovium

DCTPP1
79077
STMN1+ proliferating cells inflammatory arthritis synovium

DCUN1D5
84259
STMN1+ proliferating cells inflammatory arthritis synovium

DDT
1652
STMN1+ proliferating cells inflammatory arthritis synovium

DDX18
8886
STMN1+ proliferating cells inflammatory arthritis synovium

DDX21
9188
STMN1+ proliferating cells inflammatory arthritis synovium

DDX39A
10212
STMN1+ proliferating cells inflammatory arthritis synovium

DDX39B
7919
STMN1+ proliferating cells inflammatory arthritis synovium

DEK
7913
STMN1+ proliferating cells inflammatory arthritis synovium

DENR
8562
STMN1+ proliferating cells inflammatory arthritis synovium

DHFR
1719
STMN1+ proliferating cells inflammatory arthritis synovium

DHX15
1665
STMN1+ proliferating cells inflammatory arthritis synovium

DHX9
1660
STMN1+ proliferating cells inflammatory arthritis synovium

DIAPH3
81624
STMN1+ proliferating cells inflammatory arthritis synovium

DKC1
1736
STMN1+ proliferating cells inflammatory arthritis synovium

DLGAP5
9787
STMN1+ proliferating cells inflammatory arthritis synovium

DNAJC2
27000
STMN1+ proliferating cells inflammatory arthritis synovium

DNAJC9
23234
STMN1+ proliferating cells inflammatory arthritis synovium

DNMT1
1786
STMN1+ proliferating cells inflammatory arthritis synovium

DNPH1
10591
STMN1+ proliferating cells inflammatory arthritis synovium

DPY30
84661
STMN1+ proliferating cells inflammatory arthritis synovium

DTYMK
1841
STMN1+ proliferating cells inflammatory arthritis synovium

DUT
1854
STMN1+ proliferating cells inflammatory arthritis synovium

DYNLL2
140735
STMN1+ proliferating cells inflammatory arthritis synovium

DYNLT1
6993
STMN1+ proliferating cells inflammatory arthritis synovium

EEF1B2
1933
STMN1+ proliferating cells inflammatory arthritis synovium

EEF1D
1936
STMN1+ proliferating cells inflammatory arthritis synovium

EEF1E1
9521
STMN1+ proliferating cells inflammatory arthritis synovium

EEF1G
1937
STMN1+ proliferating cells inflammatory arthritis synovium

EIF1AD
84285
STMN1+ proliferating cells inflammatory arthritis synovium

EIF1AY
9086
STMN1+ proliferating cells inflammatory arthritis synovium

EIF2S2
8894
STMN1+ proliferating cells inflammatory arthritis synovium

EIF3A
8661
STMN1+ proliferating cells inflammatory arthritis synovium

EIF3C
8663
STMN1+ proliferating cells inflammatory arthritis synovium

EIF3J
8669
STMN1+ proliferating cells inflammatory arthritis synovium

EIF4G2
1982
STMN1+ proliferating cells inflammatory arthritis synovium

EIF5A
1984
STMN1+ proliferating cells inflammatory arthritis synovium

EIF6
3692
STMN1+ proliferating cells inflammatory arthritis synovium

ELAVL1
1994
STMN1+ proliferating cells inflammatory arthritis synovium

ELOC
6921
STMN1+ proliferating cells inflammatory arthritis synovium

EMG1
10436
STMN1+ proliferating cells inflammatory arthritis synovium

ENY2
56943
STMN1+ proliferating cells inflammatory arthritis synovium

ERH
2079
STMN1+ proliferating cells inflammatory arthritis synovium

ERI1
90459
STMN1+ proliferating cells inflammatory arthritis synovium

ESCO2
157570
STMN1+ proliferating cells inflammatory arthritis synovium

ETFB
2109
STMN1+ proliferating cells inflammatory arthritis synovium

EXOSC8
11340
STMN1+ proliferating cells inflammatory arthritis synovium

EZH2
2146
STMN1+ proliferating cells inflammatory arthritis synovium

FABP5
2171
STMN1+ proliferating cells inflammatory arthritis synovium

FAM111A
63901
STMN1+ proliferating cells inflammatory arthritis synovium

FAM133B
257415
STMN1+ proliferating cells inflammatory arthritis synovium

FBL
2091
STMN1+ proliferating cells inflammatory arthritis synovium

FBXO5
26271
STMN1+ proliferating cells inflammatory arthritis synovium

FEN1
2237
STMN1+ proliferating cells inflammatory arthritis synovium

FIGNL1
63979
STMN1+ proliferating cells inflammatory arthritis synovium

FKBP2
2286
STMN1+ proliferating cells inflammatory arthritis synovium

FKBP3
2287
STMN1+ proliferating cells inflammatory arthritis synovium

FKBP4
2288
STMN1+ proliferating cells inflammatory arthritis synovium

FUS
2521
STMN1+ proliferating cells inflammatory arthritis synovium

FXN
2395
STMN1+ proliferating cells inflammatory arthritis synovium

G3BP1
10146
STMN1+ proliferating cells inflammatory arthritis synovium

GADD45GIP1
90480
STMN1+ proliferating cells inflammatory arthritis synovium

GAR1
54433
STMN1+ proliferating cells inflammatory arthritis synovium

GAS2L3
283431
STMN1+ proliferating cells inflammatory arthritis synovium

GATM
2628
STMN1+ proliferating cells inflammatory arthritis synovium

GEMIN6
79833
STMN1+ proliferating cells inflammatory arthritis synovium

GINS2
51659
STMN1+ proliferating cells inflammatory arthritis synovium

GJA1
2697
STMN1+ proliferating cells inflammatory arthritis synovium

GLIPR1
11010
STMN1+ proliferating cells inflammatory arthritis synovium

GMNN
51053
STMN1+ proliferating cells inflammatory arthritis synovium

GNL3
26354
STMN1+ proliferating cells inflammatory arthritis synovium

GSPT1
2935
STMN1+ proliferating cells inflammatory arthritis synovium

GTF2H5
404672
STMN1+ proliferating cells inflammatory arthritis synovium

H1-4
3008
STMN1+ proliferating cells inflammatory arthritis synovium

H1-5
3009
STMN1+ proliferating cells inflammatory arthritis synovium

H2AFV
94239
STMN1+ proliferating cells inflammatory arthritis synovium

H2AFX
3014
STMN1+ proliferating cells inflammatory arthritis synovium

H2AFY
9555
STMN1+ proliferating cells inflammatory arthritis synovium

H2AFZ
3015
STMN1+ proliferating cells inflammatory arthritis synovium

HACD1
9200
STMN1+ proliferating cells inflammatory arthritis synovium

HAT1
8520
STMN1+ proliferating cells inflammatory arthritis synovium

HAUS1
115106
STMN1+ proliferating cells inflammatory arthritis synovium

HAUS4
54930
STMN1+ proliferating cells inflammatory arthritis synovium

HDAC2
3066
STMN1+ proliferating cells inflammatory arthritis synovium

HDGF
3068
STMN1+ proliferating cells inflammatory arthritis synovium

HELLS
3070
STMN1+ proliferating cells inflammatory arthritis synovium

HINT1
3094
STMN1+ proliferating cells inflammatory arthritis synovium

HIRIP3
8479
STMN1+ proliferating cells inflammatory arthritis synovium

HIST1H1D
3007
STMN1+ proliferating cells inflammatory arthritis synovium

HIST1H2AL
8332
STMN1+ proliferating cells inflammatory arthritis synovium

HIST1H4A
8359
STMN1+ proliferating cells inflammatory arthritis synovium

HIST2H2AC
8338
STMN1+ proliferating cells inflammatory arthritis synovium

HJURP
55355
STMN1+ proliferating cells inflammatory arthritis synovium

HMGB1
3146
STMN1+ proliferating cells inflammatory arthritis synovium

HMGB2
3148
STMN1+ proliferating cells inflammatory arthritis synovium

HMGB3
3149
STMN1+ proliferating cells inflammatory arthritis synovium

HMGN1
3150
STMN1+ proliferating cells inflammatory arthritis synovium

HMGN2
3151
STMN1+ proliferating cells inflammatory arthritis synovium

HMGN5
79366
STMN1+ proliferating cells inflammatory arthritis synovium

HMMR
3161
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPA0
10949
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPA1
3178
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPA2B1
3181
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPA3
220988
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPAB
3182
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPD
3184
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPM
4670
STMN1+ proliferating cells inflammatory arthritis synovium

HNRNPU
3192
STMN1+ proliferating cells inflammatory arthritis synovium

HP1BP3
50809
STMN1+ proliferating cells inflammatory arthritis synovium

HPF1
54969
STMN1+ proliferating cells inflammatory arthritis synovium

HSP90AA1
3320
STMN1+ proliferating cells inflammatory arthritis synovium

HSP90AB1
3326
STMN1+ proliferating cells inflammatory arthritis synovium

HSP90B1
7184
STMN1+ proliferating cells inflammatory arthritis synovium

HSPA14
51182
STMN1+ proliferating cells inflammatory arthritis synovium

HSPA9
3313
STMN1+ proliferating cells inflammatory arthritis synovium

HSPD1
3329
STMN1+ proliferating cells inflammatory arthritis synovium

HSPE1
3336
STMN1+ proliferating cells inflammatory arthritis synovium

HUWE1
10075
STMN1+ proliferating cells inflammatory arthritis synovium

IDH3A
3419
STMN1+ proliferating cells inflammatory arthritis synovium

ILF2
3608
STMN1+ proliferating cells inflammatory arthritis synovium

ILF3
3609
STMN1+ proliferating cells inflammatory arthritis synovium

IMMT
10989
STMN1+ proliferating cells inflammatory arthritis synovium

IMPDH2
3615
STMN1+ proliferating cells inflammatory arthritis synovium

INCENP
3619
STMN1+ proliferating cells inflammatory arthritis synovium

ING1
3621
STMN1+ proliferating cells inflammatory arthritis synovium

IPO5
3843
STMN1+ proliferating cells inflammatory arthritis synovium

ITGAV
3685
STMN1+ proliferating cells inflammatory arthritis synovium

ITPA
3704
STMN1+ proliferating cells inflammatory arthritis synovium

IVNS1ABP
10625
STMN1+ proliferating cells inflammatory arthritis synovium

JPT1
51155
STMN1+ proliferating cells inflammatory arthritis synovium

KDELR2
11014
STMN1+ proliferating cells inflammatory arthritis synovium

KHSRP
8570
STMN1+ proliferating cells inflammatory arthritis synovium

KIAA1524
57650
STMN1+ proliferating cells inflammatory arthritis synovium

KIF11
3832
STMN1+ proliferating cells inflammatory arthritis synovium

KIF15
56992
STMN1+ proliferating cells inflammatory arthritis synovium

KIF20A
10112
STMN1+ proliferating cells inflammatory arthritis synovium

KIF20B
9585
STMN1+ proliferating cells inflammatory arthritis synovium

KIF22
3835
STMN1+ proliferating cells inflammatory arthritis synovium

KIF23
9493
STMN1+ proliferating cells inflammatory arthritis synovium

KIF4A
24137
STMN1+ proliferating cells inflammatory arthritis synovium

KIFC1
3833
STMN1+ proliferating cells inflammatory arthritis synovium

KLHL5
51088
STMN1+ proliferating cells inflammatory arthritis synovium

KMT5A
387893
STMN1+ proliferating cells inflammatory arthritis synovium

KNL1
57082
STMN1+ proliferating cells inflammatory arthritis synovium

KNSTRN
90417
STMN1+ proliferating cells inflammatory arthritis synovium

KPNA2
3838
STMN1+ proliferating cells inflammatory arthritis synovium

KPNA3
3839
STMN1+ proliferating cells inflammatory arthritis synovium

KPNB1
3837
STMN1+ proliferating cells inflammatory arthritis synovium

KTN1
3895
STMN1+ proliferating cells inflammatory arthritis synovium

LARP7
51574
STMN1+ proliferating cells inflammatory arthritis synovium

LARS
51520
STMN1+ proliferating cells inflammatory arthritis synovium

LBR
3930
STMN1+ proliferating cells inflammatory arthritis synovium

LDHA
3939
STMN1+ proliferating cells inflammatory arthritis synovium

LIG1
3978
STMN1+ proliferating cells inflammatory arthritis synovium

LMF2
91289
STMN1+ proliferating cells inflammatory arthritis synovium

LMNA
4000
STMN1+ proliferating cells inflammatory arthritis synovium

LMO4
8543
STMN1+ proliferating cells inflammatory arthritis synovium

LPL
4023
STMN1+ proliferating cells inflammatory arthritis synovium

LRPPRC
10128
STMN1+ proliferating cells inflammatory arthritis synovium

LRR1
122769
STMN1+ proliferating cells inflammatory arthritis synovium

LSM2
57819
STMN1+ proliferating cells inflammatory arthritis synovium

LSM3
27258
STMN1+ proliferating cells inflammatory arthritis synovium

LSM4
25804
STMN1+ proliferating cells inflammatory arthritis synovium

LSM5
23658
STMN1+ proliferating cells inflammatory arthritis synovium

LSM6
11157
STMN1+ proliferating cells inflammatory arthritis synovium

LSM7
51690
STMN1+ proliferating cells inflammatory arthritis synovium

LSM8
51691
STMN1+ proliferating cells inflammatory arthritis synovium

LUC7L3
51747
STMN1+ proliferating cells inflammatory arthritis synovium

LYAR
55646
STMN1+ proliferating cells inflammatory arthritis synovium

M6PR
4074
STMN1+ proliferating cells inflammatory arthritis synovium

MAD2L1
4085
STMN1+ proliferating cells inflammatory arthritis synovium

MAGOH
4116
STMN1+ proliferating cells inflammatory arthritis synovium

MAGOHB
55110
STMN1+ proliferating cells inflammatory arthritis synovium

MAP4K4
9448
STMN1+ proliferating cells inflammatory arthritis synovium

MAPK1
5594
STMN1+ proliferating cells inflammatory arthritis synovium

MATR3
9782
STMN1+ proliferating cells inflammatory arthritis synovium

MBD3
53615
STMN1+ proliferating cells inflammatory arthritis synovium

MCM3
4172
STMN1+ proliferating cells inflammatory arthritis synovium

MCM4
4173
STMN1+ proliferating cells inflammatory arthritis synovium

MCM5
4174
STMN1+ proliferating cells inflammatory arthritis synovium

MCM6
4175
STMN1+ proliferating cells inflammatory arthritis synovium

MCM7
4176
STMN1+ proliferating cells inflammatory arthritis synovium

MDH2
4191
STMN1+ proliferating cells inflammatory arthritis synovium

MED30
90390
STMN1+ proliferating cells inflammatory arthritis synovium

MELK
9833
STMN1+ proliferating cells inflammatory arthritis synovium

METAP2
10988
STMN1+ proliferating cells inflammatory arthritis synovium

MIF
4282
STMN1+ proliferating cells inflammatory arthritis synovium

MINOS1
440574
STMN1+ proliferating cells inflammatory arthritis synovium

MIS12
79003
STMN1+ proliferating cells inflammatory arthritis synovium

MIS18A
54069
STMN1+ proliferating cells inflammatory arthritis synovium

MIS18BP1
55320
STMN1+ proliferating cells inflammatory arthritis synovium

MKI67
4288
STMN1+ proliferating cells inflammatory arthritis synovium

MMP14
4323
STMN1+ proliferating cells inflammatory arthritis synovium

MPHOSPH6
10200
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL12
6182
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL15
29088
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL18
29074
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL28
10573
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL34
64981
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL42
28977
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL49
740
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL51
51258
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL52
122704
STMN1+ proliferating cells inflammatory arthritis synovium

MRPL57
78988
STMN1+ proliferating cells inflammatory arthritis synovium

MRPS14
63931
STMN1+ proliferating cells inflammatory arthritis synovium

MRPS17
51373
STMN1+ proliferating cells inflammatory arthritis synovium

MRPS25
64432
STMN1+ proliferating cells inflammatory arthritis synovium

MRPS26
64949
STMN1+ proliferating cells inflammatory arthritis synovium

MRPS28
28957
STMN1+ proliferating cells inflammatory arthritis synovium

MRPS36
92259
STMN1+ proliferating cells inflammatory arthritis synovium

MT-ATP6
4508
STMN1+ proliferating cells inflammatory arthritis synovium

MT-ATP8
4509
STMN1+ proliferating cells inflammatory arthritis synovium

MT-CO1
4512
STMN1+ proliferating cells inflammatory arthritis synovium

MT-CO2
4513
STMN1+ proliferating cells inflammatory arthritis synovium

MT-CO3
4514
STMN1+ proliferating cells inflammatory arthritis synovium

MT-ND1
4535
STMN1+ proliferating cells inflammatory arthritis synovium

MT-ND3
4537
STMN1+ proliferating cells inflammatory arthritis synovium

MT-ND4L
4539
STMN1+ proliferating cells inflammatory arthritis synovium

MT1A
4489
STMN1+ proliferating cells inflammatory arthritis synovium

MT2A
4502
STMN1+ proliferating cells inflammatory arthritis synovium

MXD3
83463
STMN1+ proliferating cells inflammatory arthritis synovium

MYADM
91663
STMN1+ proliferating cells inflammatory arthritis synovium

MYBBP1A
10514
STMN1+ proliferating cells inflammatory arthritis synovium

MYBL2
4605
STMN1+ proliferating cells inflammatory arthritis synovium

MYCBP
26292
STMN1+ proliferating cells inflammatory arthritis synovium

MYEF2
50804
STMN1+ proliferating cells inflammatory arthritis synovium

NAA10
8260
STMN1+ proliferating cells inflammatory arthritis synovium

NAA50
80218
STMN1+ proliferating cells inflammatory arthritis synovium

NANS
54187
STMN1+ proliferating cells inflammatory arthritis synovium

NAP1L1
4673
STMN1+ proliferating cells inflammatory arthritis synovium

NASP
4678
STMN1+ proliferating cells inflammatory arthritis synovium

NAV2
89797
STMN1+ proliferating cells inflammatory arthritis synovium

NCAPD2
9918
STMN1+ proliferating cells inflammatory arthritis synovium

NCAPD3
23310
STMN1+ proliferating cells inflammatory arthritis synovium

NCAPG
64151
STMN1+ proliferating cells inflammatory arthritis synovium

NCAPG2
54892
STMN1+ proliferating cells inflammatory arthritis synovium

NCAPH
23397
STMN1+ proliferating cells inflammatory arthritis synovium

NCAPH2
29781
STMN1+ proliferating cells inflammatory arthritis synovium

NCBP1
4686
STMN1+ proliferating cells inflammatory arthritis synovium

NCL
4691
STMN1+ proliferating cells inflammatory arthritis synovium

NDC80
10403
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFA12
55967
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFA2
4695
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFA5
4698
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFAB1
4706
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFAF2
91942
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFAF4
29078
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFB10
4716
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFB11
54539
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFB6
4712
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFB7
4713
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFB8
4714
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFC1
4717
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFC2
4718
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFS5
4725
STMN1+ proliferating cells inflammatory arthritis synovium

NDUFV2
4729
STMN1+ proliferating cells inflammatory arthritis synovium

NFATC1
4772
STMN1+ proliferating cells inflammatory arthritis synovium

NHP2
55651
STMN1+ proliferating cells inflammatory arthritis synovium

NME1
4830
STMN1+ proliferating cells inflammatory arthritis synovium

NMRAL1
57407
STMN1+ proliferating cells inflammatory arthritis synovium

NMT2
9397
STMN1+ proliferating cells inflammatory arthritis synovium

NOL7
51406
STMN1+ proliferating cells inflammatory arthritis synovium

NOLC1
9221
STMN1+ proliferating cells inflammatory arthritis synovium

NONO
4841
STMN1+ proliferating cells inflammatory arthritis synovium

NOP10
55505
STMN1+ proliferating cells inflammatory arthritis synovium

NOP16
51491
STMN1+ proliferating cells inflammatory arthritis synovium

NOP56
10528
STMN1+ proliferating cells inflammatory arthritis synovium

NOP58
51602
STMN1+ proliferating cells inflammatory arthritis synovium

NPM1
4869
STMN1+ proliferating cells inflammatory arthritis synovium

NPM3
10360
STMN1+ proliferating cells inflammatory arthritis synovium

NRM
11270
STMN1+ proliferating cells inflammatory arthritis synovium

NRP2
8828
STMN1+ proliferating cells inflammatory arthritis synovium

NSD2
7468
STMN1+ proliferating cells inflammatory arthritis synovium

NSMCE1
197370
STMN1+ proliferating cells inflammatory arthritis synovium

NSUN2
54888
STMN1+ proliferating cells inflammatory arthritis synovium

NUBP1
4682
STMN1+ proliferating cells inflammatory arthritis synovium

NUCKS1
64710
STMN1+ proliferating cells inflammatory arthritis synovium

NUDC
10726
STMN1+ proliferating cells inflammatory arthritis synovium

NUDCD2
134492
STMN1+ proliferating cells inflammatory arthritis synovium

NUDT5
11164
STMN1+ proliferating cells inflammatory arthritis synovium

NUF2
83540
STMN1+ proliferating cells inflammatory arthritis synovium

NUMA1
4926
STMN1+ proliferating cells inflammatory arthritis synovium

NUP35
129401
STMN1+ proliferating cells inflammatory arthritis synovium

NUP85
79902
STMN1+ proliferating cells inflammatory arthritis synovium

NUP93
9688
STMN1+ proliferating cells inflammatory arthritis synovium

NUSAP1
51203
STMN1+ proliferating cells inflammatory arthritis synovium

NXT1
29107
STMN1+ proliferating cells inflammatory arthritis synovium

ODC1
4953
STMN1+ proliferating cells inflammatory arthritis synovium

ODF2
4957
STMN1+ proliferating cells inflammatory arthritis synovium

OLA1
29789
STMN1+ proliferating cells inflammatory arthritis synovium

ORC6
23594
STMN1+ proliferating cells inflammatory arthritis synovium

OXCT1
5019
STMN1+ proliferating cells inflammatory arthritis synovium

PA2G4
5036
STMN1+ proliferating cells inflammatory arthritis synovium

PABPC1
26986
STMN1+ proliferating cells inflammatory arthritis synovium

PABPC4
8761
STMN1+ proliferating cells inflammatory arthritis synovium

PAICS
10606
STMN1+ proliferating cells inflammatory arthritis synovium

PARK7
11315
STMN1+ proliferating cells inflammatory arthritis synovium

PARL
55486
STMN1+ proliferating cells inflammatory arthritis synovium

PBK
55872
STMN1+ proliferating cells inflammatory arthritis synovium

PBRM1
55193
STMN1+ proliferating cells inflammatory arthritis synovium

PCBD2
84105
STMN1+ proliferating cells inflammatory arthritis synovium

PCBP1
5093
STMN1+ proliferating cells inflammatory arthritis synovium

PCBP2
5094
STMN1+ proliferating cells inflammatory arthritis synovium

PCLAF
9768
STMN1+ proliferating cells inflammatory arthritis synovium

PCNA
5111
STMN1+ proliferating cells inflammatory arthritis synovium

PDAP1
11333
STMN1+ proliferating cells inflammatory arthritis synovium

PDCD5
9141
STMN1+ proliferating cells inflammatory arthritis synovium

PDPK1
5170
STMN1+ proliferating cells inflammatory arthritis synovium

PDS5A
23244
STMN1+ proliferating cells inflammatory arthritis synovium

PFDN4
5203
STMN1+ proliferating cells inflammatory arthritis synovium

PFDN6
10471
STMN1+ proliferating cells inflammatory arthritis synovium

PGK1
5230
STMN1+ proliferating cells inflammatory arthritis synovium

PGP
283871
STMN1+ proliferating cells inflammatory arthritis synovium

PHB2
11331
STMN1+ proliferating cells inflammatory arthritis synovium

PIH1D1
55011
STMN1+ proliferating cells inflammatory arthritis synovium

PIMREG
54478
STMN1+ proliferating cells inflammatory arthritis synovium

PKMYT1
9088
STMN1+ proliferating cells inflammatory arthritis synovium

PLK1
5347
STMN1+ proliferating cells inflammatory arthritis synovium

PLK4
10733
STMN1+ proliferating cells inflammatory arthritis synovium

PLP2
5355
STMN1+ proliferating cells inflammatory arthritis synovium

PMF1
11243
STMN1+ proliferating cells inflammatory arthritis synovium

PNN
5411
STMN1+ proliferating cells inflammatory arthritis synovium

POLD2
5425
STMN1+ proliferating cells inflammatory arthritis synovium

POLE3
54107
STMN1+ proliferating cells inflammatory arthritis synovium

POLE4
56655
STMN1+ proliferating cells inflammatory arthritis synovium

POLR2A
5430
STMN1+ proliferating cells inflammatory arthritis synovium

POLR2F
5435
STMN1+ proliferating cells inflammatory arthritis synovium

POLR2L
5441
STMN1+ proliferating cells inflammatory arthritis synovium

PPA1
5464
STMN1+ proliferating cells inflammatory arthritis synovium

PPIA
5478
STMN1+ proliferating cells inflammatory arthritis synovium

PPID
5481
STMN1+ proliferating cells inflammatory arthritis synovium

PPIH
10465
STMN1+ proliferating cells inflammatory arthritis synovium

PPP2R5C
5527
STMN1+ proliferating cells inflammatory arthritis synovium

PRC1
9055
STMN1+ proliferating cells inflammatory arthritis synovium

PRDX4
10549
STMN1+ proliferating cells inflammatory arthritis synovium

PRIM1
5557
STMN1+ proliferating cells inflammatory arthritis synovium

PRKAR2A
5576
STMN1+ proliferating cells inflammatory arthritis synovium

PRMT1
3276
STMN1+ proliferating cells inflammatory arthritis synovium

PRR11
55771
STMN1+ proliferating cells inflammatory arthritis synovium

PRRC2A
7916
STMN1+ proliferating cells inflammatory arthritis synovium

PSAT1
29968
STMN1+ proliferating cells inflammatory arthritis synovium

PSIP1
11168
STMN1+ proliferating cells inflammatory arthritis synovium

PSMA6
5687
STMN1+ proliferating cells inflammatory arthritis synovium

PSMB7
5695
STMN1+ proliferating cells inflammatory arthritis synovium

PSMC3
5702
STMN1+ proliferating cells inflammatory arthritis synovium

PSMD1
5707
STMN1+ proliferating cells inflammatory arthritis synovium

PSMD10
5716
STMN1+ proliferating cells inflammatory arthritis synovium

PSMD14
10213
STMN1+ proliferating cells inflammatory arthritis synovium

PSMG2
56984
STMN1+ proliferating cells inflammatory arthritis synovium

PTBP1
5725
STMN1+ proliferating cells inflammatory arthritis synovium

PTGES3
10728
STMN1+ proliferating cells inflammatory arthritis synovium

PTMA
5757
STMN1+ proliferating cells inflammatory arthritis synovium

PTPN7
5778
STMN1+ proliferating cells inflammatory arthritis synovium

PURB
5814
STMN1+ proliferating cells inflammatory arthritis synovium

QDPR
5860
STMN1+ proliferating cells inflammatory arthritis synovium

RACGAP1
29127
STMN1+ proliferating cells inflammatory arthritis synovium

RACK1
10399
STMN1+ proliferating cells inflammatory arthritis synovium

RAD21
5885
STMN1+ proliferating cells inflammatory arthritis synovium

RAD23B
5887
STMN1+ proliferating cells inflammatory arthritis synovium

RAD51
5888
STMN1+ proliferating cells inflammatory arthritis synovium

RAD51AP1
10635
STMN1+ proliferating cells inflammatory arthritis synovium

RAD54L
8438
STMN1+ proliferating cells inflammatory arthritis synovium

RAN
5901
STMN1+ proliferating cells inflammatory arthritis synovium

RANBP1
5902
STMN1+ proliferating cells inflammatory arthritis synovium

RANGAP1
5905
STMN1+ proliferating cells inflammatory arthritis synovium

RBBP4
5928
STMN1+ proliferating cells inflammatory arthritis synovium

RBBP7
5931
STMN1+ proliferating cells inflammatory arthritis synovium

RBM3
5935
STMN1+ proliferating cells inflammatory arthritis synovium

RBM8A
9939
STMN1+ proliferating cells inflammatory arthritis synovium

RCC1
1104
STMN1+ proliferating cells inflammatory arthritis synovium

RCC2
55920
STMN1+ proliferating cells inflammatory arthritis synovium

RDM1
201299
STMN1+ proliferating cells inflammatory arthritis synovium

RDX
5962
STMN1+ proliferating cells inflammatory arthritis synovium

RFC1
5981
STMN1+ proliferating cells inflammatory arthritis synovium

RFC2
5982
STMN1+ proliferating cells inflammatory arthritis synovium

RFC3
5983
STMN1+ proliferating cells inflammatory arthritis synovium

RFC4
5984
STMN1+ proliferating cells inflammatory arthritis synovium

RFC5
5985
STMN1+ proliferating cells inflammatory arthritis synovium

RFWD3
55159
STMN1+ proliferating cells inflammatory arthritis synovium

RHNO1
83695
STMN1+ proliferating cells inflammatory arthritis synovium

RNASEH2A
10535
STMN1+ proliferating cells inflammatory arthritis synovium

RNASEH2B
79621
STMN1+ proliferating cells inflammatory arthritis synovium

RNASEH2C
84153
STMN1+ proliferating cells inflammatory arthritis synovium

RNF19B
127544
STMN1+ proliferating cells inflammatory arthritis synovium

RNF7
9616
STMN1+ proliferating cells inflammatory arthritis synovium

RNPS1
10921
STMN1+ proliferating cells inflammatory arthritis synovium

ROCK2
9475
STMN1+ proliferating cells inflammatory arthritis synovium

RPA1
6117
STMN1+ proliferating cells inflammatory arthritis synovium

RPA2
6118
STMN1+ proliferating cells inflammatory arthritis synovium

RPA3
6119
STMN1+ proliferating cells inflammatory arthritis synovium

RPL10A
4736
STMN1+ proliferating cells inflammatory arthritis synovium

RPL12
6136
STMN1+ proliferating cells inflammatory arthritis synovium

RPL13A
23521
STMN1+ proliferating cells inflammatory arthritis synovium

RPL14
9045
STMN1+ proliferating cells inflammatory arthritis synovium

RPL18
6141
STMN1+ proliferating cells inflammatory arthritis synovium

RPL21
6144
STMN1+ proliferating cells inflammatory arthritis synovium

RPL22
6146
STMN1+ proliferating cells inflammatory arthritis synovium

RPL22L1
200916
STMN1+ proliferating cells inflammatory arthritis synovium

RPL23
9349
STMN1+ proliferating cells inflammatory arthritis synovium

RPL28
6158
STMN1+ proliferating cells inflammatory arthritis synovium

RPL30
6156
STMN1+ proliferating cells inflammatory arthritis synovium

RPL31
6160
STMN1+ proliferating cells inflammatory arthritis synovium

RPL32
6161
STMN1+ proliferating cells inflammatory arthritis synovium

RPL35
11224
STMN1+ proliferating cells inflammatory arthritis synovium

RPL35A
6165
STMN1+ proliferating cells inflammatory arthritis synovium

RPL36
25873
STMN1+ proliferating cells inflammatory arthritis synovium

RPL36A
6173
STMN1+ proliferating cells inflammatory arthritis synovium

RPL37A
6168
STMN1+ proliferating cells inflammatory arthritis synovium

RPL38
6169
STMN1+ proliferating cells inflammatory arthritis synovium

RPL39
6170
STMN1+ proliferating cells inflammatory arthritis synovium

RPL5
6125
STMN1+ proliferating cells inflammatory arthritis synovium

RPLP1
6176
STMN1+ proliferating cells inflammatory arthritis synovium

RPLP2
6181
STMN1+ proliferating cells inflammatory arthritis synovium

RPS10
6204
STMN1+ proliferating cells inflammatory arthritis synovium

RPS12
6206
STMN1+ proliferating cells inflammatory arthritis synovium

RPS13
6207
STMN1+ proliferating cells inflammatory arthritis synovium

RPS15
6209
STMN1+ proliferating cells inflammatory arthritis synovium

RPS15A
6210
STMN1+ proliferating cells inflammatory arthritis synovium

RPS17
6218
STMN1+ proliferating cells inflammatory arthritis synovium

RPS18
6222
STMN1+ proliferating cells inflammatory arthritis synovium

RPS19
6223
STMN1+ proliferating cells inflammatory arthritis synovium

RPS19BP1
91582
STMN1+ proliferating cells inflammatory arthritis synovium

RPS2
6187
STMN1+ proliferating cells inflammatory arthritis synovium

RPS20
6224
STMN1+ proliferating cells inflammatory arthritis synovium

RPS21
6227
STMN1+ proliferating cells inflammatory arthritis synovium

RPS24
6229
STMN1+ proliferating cells inflammatory arthritis synovium

RPS26
6231
STMN1+ proliferating cells inflammatory arthritis synovium

RPS27A
6233
STMN1+ proliferating cells inflammatory arthritis synovium

RPS27L
51065
STMN1+ proliferating cells inflammatory arthritis synovium

RPS3A
6189
STMN1+ proliferating cells inflammatory arthritis synovium

RPS5
6193
STMN1+ proliferating cells inflammatory arthritis synovium

RPS8
6202
STMN1+ proliferating cells inflammatory arthritis synovium

RPSA
3921
STMN1+ proliferating cells inflammatory arthritis synovium

RRM1
6240
STMN1+ proliferating cells inflammatory arthritis synovium

RRM2
6241
STMN1+ proliferating cells inflammatory arthritis synovium

RSL1D1
26156
STMN1+ proliferating cells inflammatory arthritis synovium

S100A10
6281
STMN1+ proliferating cells inflammatory arthritis synovium

S100A4
6275
STMN1+ proliferating cells inflammatory arthritis synovium

SAE1
10055
STMN1+ proliferating cells inflammatory arthritis synovium

SDC3
9672
STMN1+ proliferating cells inflammatory arthritis synovium

SDHD
6392
STMN1+ proliferating cells inflammatory arthritis synovium

SEC11C
90701
STMN1+ proliferating cells inflammatory arthritis synovium

SEC31A
22872
STMN1+ proliferating cells inflammatory arthritis synovium

SELENOH
280636
STMN1+ proliferating cells inflammatory arthritis synovium

SERBP1
26135
STMN1+ proliferating cells inflammatory arthritis synovium

SET
6418
STMN1+ proliferating cells inflammatory arthritis synovium

SF3A3
10946
STMN1+ proliferating cells inflammatory arthritis synovium

SF3B3
23450
STMN1+ proliferating cells inflammatory arthritis synovium

SF3B5
83443
STMN1+ proliferating cells inflammatory arthritis synovium

SFPQ
6421
STMN1+ proliferating cells inflammatory arthritis synovium

SFXN1
94081
STMN1+ proliferating cells inflammatory arthritis synovium

SGO1
151648
STMN1+ proliferating cells inflammatory arthritis synovium

SGO2
151246
STMN1+ proliferating cells inflammatory arthritis synovium

SHCBP1
79801
STMN1+ proliferating cells inflammatory arthritis synovium

SHMT2
6472
STMN1+ proliferating cells inflammatory arthritis synovium

SIVA1
10572
STMN1+ proliferating cells inflammatory arthritis synovium

SKA1
220134
STMN1+ proliferating cells inflammatory arthritis synovium

SLBP
7884
STMN1+ proliferating cells inflammatory arthritis synovium

SLC1A5
6510
STMN1+ proliferating cells inflammatory arthritis synovium

SLC25A10
1468
STMN1+ proliferating cells inflammatory arthritis synovium

SLC25A4
291
STMN1+ proliferating cells inflammatory arthritis synovium

SLC25A5
292
STMN1+ proliferating cells inflammatory arthritis synovium

SLC29A1
2030
STMN1+ proliferating cells inflammatory arthritis synovium

SLC4A7
9497
STMN1+ proliferating cells inflammatory arthritis synovium

SLFN13
146857
STMN1+ proliferating cells inflammatory arthritis synovium

SLIRP
81892
STMN1+ proliferating cells inflammatory arthritis synovium

SMARCA5
8467
STMN1+ proliferating cells inflammatory arthritis synovium

SMC1A
8243
STMN1+ proliferating cells inflammatory arthritis synovium

SMC2
10592
STMN1+ proliferating cells inflammatory arthritis synovium

SMC3
9126
STMN1+ proliferating cells inflammatory arthritis synovium

SMC4
10051
STMN1+ proliferating cells inflammatory arthritis synovium

SMC6
79677
STMN1+ proliferating cells inflammatory arthritis synovium

SMCHD1
23347
STMN1+ proliferating cells inflammatory arthritis synovium

SMS
6611
STMN1+ proliferating cells inflammatory arthritis synovium

SMYD2
56950
STMN1+ proliferating cells inflammatory arthritis synovium

SNHG6
641638
STMN1+ proliferating cells inflammatory arthritis synovium

SNRNP25
79622
STMN1+ proliferating cells inflammatory arthritis synovium

SNRNP27
11017
STMN1+ proliferating cells inflammatory arthritis synovium

SNRNP70
6625
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPA1
6627
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPB
6628
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPC
6631
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPD1
6632
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPD2
6633
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPD3
6634
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPE
6635
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPF
6636
STMN1+ proliferating cells inflammatory arthritis synovium

SNRPG
6637
STMN1+ proliferating cells inflammatory arthritis synovium

SNU13
4809
STMN1+ proliferating cells inflammatory arthritis synovium

SOD1
6647
STMN1+ proliferating cells inflammatory arthritis synovium

SPC24
147841
STMN1+ proliferating cells inflammatory arthritis synovium

SPC25
57405
STMN1+ proliferating cells inflammatory arthritis synovium

SPCS3
60559
STMN1+ proliferating cells inflammatory arthritis synovium

SPN
6693
STMN1+ proliferating cells inflammatory arthritis synovium

SRM
6723
STMN1+ proliferating cells inflammatory arthritis synovium

SRRM1
10250
STMN1+ proliferating cells inflammatory arthritis synovium

SRSF1
6426
STMN1+ proliferating cells inflammatory arthritis synovium

SRSF10
10772
STMN1+ proliferating cells inflammatory arthritis synovium

SRSF2
6427
STMN1+ proliferating cells inflammatory arthritis synovium

SRSF3
6428
STMN1+ proliferating cells inflammatory arthritis synovium

SRSF7
6432
STMN1+ proliferating cells inflammatory arthritis synovium

SSB
6741
STMN1+ proliferating cells inflammatory arthritis synovium

SSNA1
8636
STMN1+ proliferating cells inflammatory arthritis synovium

SSRP1
6749
STMN1+ proliferating cells inflammatory arthritis synovium

STIP1
10963
STMN1+ proliferating cells inflammatory arthritis synovium

STMN1
3925
STMN1+ proliferating cells inflammatory arthritis synovium

STUB1
10273
STMN1+ proliferating cells inflammatory arthritis synovium

SUPT16H
11198
STMN1+ proliferating cells inflammatory arthritis synovium

SUZ12
23512
STMN1+ proliferating cells inflammatory arthritis synovium

SYCE2
256126
STMN1+ proliferating cells inflammatory arthritis synovium

SYNCRIP
10492
STMN1+ proliferating cells inflammatory arthritis synovium

TACC3
10460
STMN1+ proliferating cells inflammatory arthritis synovium

TAGLN2
8407
STMN1+ proliferating cells inflammatory arthritis synovium

TARDBP
23435
STMN1+ proliferating cells inflammatory arthritis synovium

TCEAL9
51186
STMN1+ proliferating cells inflammatory arthritis synovium

TCF3
6929
STMN1+ proliferating cells inflammatory arthritis synovium

TCP1
6950
STMN1+ proliferating cells inflammatory arthritis synovium

TEX30
93081
STMN1+ proliferating cells inflammatory arthritis synovium

TFDP1
7027
STMN1+ proliferating cells inflammatory arthritis synovium

TFRC
7037
STMN1+ proliferating cells inflammatory arthritis synovium

THOC7
80145
STMN1+ proliferating cells inflammatory arthritis synovium

TIAL1
7073
STMN1+ proliferating cells inflammatory arthritis synovium

TIMM13
26517
STMN1+ proliferating cells inflammatory arthritis synovium

TIMM50
92609
STMN1+ proliferating cells inflammatory arthritis synovium

TIMM8A
1678
STMN1+ proliferating cells inflammatory arthritis synovium

TIPIN
54962
STMN1+ proliferating cells inflammatory arthritis synovium

TK1
7083
STMN1+ proliferating cells inflammatory arthritis synovium

TMEM107
84314
STMN1+ proliferating cells inflammatory arthritis synovium

TMEM97
27346
STMN1+ proliferating cells inflammatory arthritis synovium

TMPO
7112
STMN1+ proliferating cells inflammatory arthritis synovium

TOMM20
9804
STMN1+ proliferating cells inflammatory arthritis synovium

TOMM5
401505
STMN1+ proliferating cells inflammatory arthritis synovium

TOMM7
54543
STMN1+ proliferating cells inflammatory arthritis synovium

TOMM70A
9868
STMN1+ proliferating cells inflammatory arthritis synovium

TOP2A
7153
STMN1+ proliferating cells inflammatory arthritis synovium

TOPBP1
11073
STMN1+ proliferating cells inflammatory arthritis synovium

TPM4
7171
STMN1+ proliferating cells inflammatory arthritis synovium

TPX2
22974
STMN1+ proliferating cells inflammatory arthritis synovium

TRIM28
10155
STMN1+ proliferating cells inflammatory arthritis synovium

TRIM59
286827
STMN1+ proliferating cells inflammatory arthritis synovium

TRIP13
9319
STMN1+ proliferating cells inflammatory arthritis synovium

TSC22D1
8848
STMN1+ proliferating cells inflammatory arthritis synovium

TSFM
10102
STMN1+ proliferating cells inflammatory arthritis synovium

TSSC4
10078
STMN1+ proliferating cells inflammatory arthritis synovium

TUBA1B
10376
STMN1+ proliferating cells inflammatory arthritis synovium

TUBA1C
84790
STMN1+ proliferating cells inflammatory arthritis synovium

TUBB
203068
STMN1+ proliferating cells inflammatory arthritis synovium

TUBB2A
7280
STMN1+ proliferating cells inflammatory arthritis synovium

TUBB4B
10383
STMN1+ proliferating cells inflammatory arthritis synovium

TUBB6
84617
STMN1+ proliferating cells inflammatory arthritis synovium

TUBG1
7283
STMN1+ proliferating cells inflammatory arthritis synovium

TXN
7295
STMN1+ proliferating cells inflammatory arthritis synovium

TXNL1
9352
STMN1+ proliferating cells inflammatory arthritis synovium

TXNRD1
7296
STMN1+ proliferating cells inflammatory arthritis synovium

TYMS
7298
STMN1+ proliferating cells inflammatory arthritis synovium

U2AF1
7307
STMN1+ proliferating cells inflammatory arthritis synovium

UBA2
10054
STMN1+ proliferating cells inflammatory arthritis synovium

UBALD2
283991
STMN1+ proliferating cells inflammatory arthritis synovium

UBE2C
11065
STMN1+ proliferating cells inflammatory arthritis synovium

UBE2S
27338
STMN1+ proliferating cells inflammatory arthritis synovium

UBE2T
29089
STMN1+ proliferating cells inflammatory arthritis synovium

UCHL5
51377
STMN1+ proliferating cells inflammatory arthritis synovium

UHRF1
29128
STMN1+ proliferating cells inflammatory arthritis synovium

UQCC2
84300
STMN1+ proliferating cells inflammatory arthritis synovium

UQCR10
29796
STMN1+ proliferating cells inflammatory arthritis synovium

UQCR11
10975
STMN1+ proliferating cells inflammatory arthritis synovium

UQCRFS1
7386
STMN1+ proliferating cells inflammatory arthritis synovium

UQCRQ
27089
STMN1+ proliferating cells inflammatory arthritis synovium

USMG5
84833
STMN1+ proliferating cells inflammatory arthritis synovium

USP1
7398
STMN1+ proliferating cells inflammatory arthritis synovium

VARS
7407
STMN1+ proliferating cells inflammatory arthritis synovium

VCP
7415
STMN1+ proliferating cells inflammatory arthritis synovium

VDAC1
7416
STMN1+ proliferating cells inflammatory arthritis synovium

VDAC2
7417
STMN1+ proliferating cells inflammatory arthritis synovium

VIM
7431
STMN1+ proliferating cells inflammatory arthritis synovium

VMA21
203547
STMN1+ proliferating cells inflammatory arthritis synovium

VRK1
7443
STMN1+ proliferating cells inflammatory arthritis synovium

WAPL
23063
STMN1+ proliferating cells inflammatory arthritis synovium

WDR43
23160
STMN1+ proliferating cells inflammatory arthritis synovium

WDR89
112840
STMN1+ proliferating cells inflammatory arthritis synovium

XPO1
7514
STMN1+ proliferating cells inflammatory arthritis synovium

YBX1
4904
STMN1+ proliferating cells inflammatory arthritis synovium

YBX3
8531
STMN1+ proliferating cells inflammatory arthritis synovium

YWHAH
7533
STMN1+ proliferating cells inflammatory arthritis synovium

ZC3H15
55854
STMN1+ proliferating cells inflammatory arthritis synovium

ADAM28
10863
HBEGF+ proinflammatory macrophages

ADAMDEC1
27299
HBEGF+ proinflammatory macrophages

ANKRD37
353322
HBEGF+ proinflammatory macrophages

ARL4A
10124
HBEGF+ proinflammatory macrophages

ARL5B
221079
HBEGF+ proinflammatory macrophages

ATF3
467
HBEGF+ proinflammatory macrophages

B4GALT1
2683
HBEGF+ proinflammatory macrophages

BIRC3
330
HBEGF+ proinflammatory macrophages

CCNH
902
HBEGF+ proinflammatory macrophages

CHML
1122
HBEGF+ proinflammatory macrophages

CHMP1B
57132
HBEGF+ proinflammatory macrophages

CREM
1390
HBEGF+ proinflammatory macrophages

CSRNP1
64651
HBEGF+ proinflammatory macrophages

CXCL2
2920
HBEGF+ proinflammatory macrophages

CXCL3
2921
HBEGF+ proinflammatory macrophages

CXCL8
3576
HBEGF+ proinflammatory macrophages

CYB5D1
124637
HBEGF+ proinflammatory macrophages

DDX3Y
8653
HBEGF+ proinflammatory macrophages

DNAJA4
55466
HBEGF+ proinflammatory macrophages

DNAJB1
3337
HBEGF+ proinflammatory macrophages

DNAJB6
10049
HBEGF+ proinflammatory macrophages

DUSP2
1844
HBEGF+ proinflammatory macrophages

EGR1
1958
HBEGF+ proinflammatory macrophages

EGR3
1960
HBEGF+ proinflammatory macrophages

EREG
2069
HBEGF+ proinflammatory macrophages

ERN1
2081
HBEGF+ proinflammatory macrophages

FCER1A
2205
HBEGF+ proinflammatory macrophages

FOSB
2354
HBEGF+ proinflammatory macrophages

FOSL2
2355
HBEGF+ proinflammatory macrophages

GLA
2717
HBEGF+ proinflammatory macrophages

GPR183
1880
HBEGF+ proinflammatory macrophages

GRASP
160622
HBEGF+ proinflammatory macrophages

HBEGF
1839
HBEGF+ proinflammatory macrophages

HNRNPU-AS1
284702
HBEGF+ proinflammatory macrophages

HSP90AA1
3320
HBEGF+ proinflammatory macrophages

HSPA1A
3303
HBEGF+ proinflammatory macrophages

HSPA1B
3304
HBEGF+ proinflammatory macrophages

HSPD1
3329
HBEGF+ proinflammatory macrophages

HSPH1
10808
HBEGF+ proinflammatory macrophages

IER2
9592
HBEGF+ proinflammatory macrophages

IER3
8870
HBEGF+ proinflammatory macrophages

IL1B
3553
HBEGF+ proinflammatory macrophages

INSIG1
3638
HBEGF+ proinflammatory macrophages

JMY
133746
HBEGF+ proinflammatory macrophages

JUNB
3726
HBEGF+ proinflammatory macrophages

KDM6B
23135
HBEGF+ proinflammatory macrophages

LDLR
3949
HBEGF+ proinflammatory macrophages

MAFF
23764
HBEGF+ proinflammatory macrophages

MIR24-2
407013
HBEGF+ proinflammatory macrophages

MIR29B1
407024
HBEGF+ proinflammatory macrophages

MXD1
4084
HBEGF+ proinflammatory macrophages

NFIL3
4783
HBEGF+ proinflammatory macrophages

NFKBID
84807
HBEGF+ proinflammatory macrophages

NR4A1
3164
HBEGF+ proinflammatory macrophages

NR4A2
4929
HBEGF+ proinflammatory macrophages

NR4A3
8013
HBEGF+ proinflammatory macrophages

NRARP
441478
HBEGF+ proinflammatory macrophages

PFKFB3
5209
HBEGF+ proinflammatory macrophages

PHACTR1
221692
HBEGF+ proinflammatory macrophages

PLAUR
5329
HBEGF+ proinflammatory macrophages

PRMT9
90826
HBEGF+ proinflammatory macrophages

PTGER4
5734
HBEGF+ proinflammatory macrophages

PTGS2
5743
HBEGF+ proinflammatory macrophages

RASSF5
83593
HBEGF+ proinflammatory macrophages

RGS2
5997
HBEGF+ proinflammatory macrophages

RHOB
388
HBEGF+ proinflammatory macrophages

RN7SL368P
1.06E+08
HBEGF+ proinflammatory macrophages

SATB1
6304
HBEGF+ proinflammatory macrophages

SELK
58515
HBEGF+ proinflammatory macrophages

SEMA4A
64218
HBEGF+ proinflammatory macrophages

SIK1
150094
HBEGF+ proinflammatory macrophages

SLC25A44
9673
HBEGF+ proinflammatory macrophages

SOCS3
9021
HBEGF+ proinflammatory macrophages

SYAP1
94056
HBEGF+ proinflammatory macrophages

THBS1
7057
HBEGF+ proinflammatory macrophages

TNFAIP3
7128
HBEGF+ proinflammatory macrophages

TSPYL2
64061
HBEGF+ proinflammatory macrophages

USP36
57602
HBEGF+ proinflammatory macrophages

VEGFA
7422
HBEGF+ proinflammatory macrophages

ZFP36
7538
HBEGF+ proinflammatory macrophages

ZNF331
55422
HBEGF+ proinflammatory macrophages

ALDOA
226
IFN-activated macrophages

APOBEC3A
200315
IFN-activated macrophages

AQP9
366
IFN-activated macrophages

C15orf48
84419
IFN-activated macrophages

CD300E
342510
IFN-activated macrophages

CD36
948
IFN-activated macrophages

CD52
1043
IFN-activated macrophages

CSTB
1476
IFN-activated macrophages

ENO1
2023
IFN-activated macrophages

ENO2
2026
IFN-activated macrophages

FAM65B
9750
IFN-activated macrophages

FCN1
2219
IFN-activated macrophages

FN1
2335
IFN-activated macrophages

GAPDH
2597
IFN-activated macrophages

IFI44L
10964
IFN-activated macrophages

IFI6
2537
IFN-activated macrophages

IGHM
3507
IFN-activated macrophages

ISG15
9636
IFN-activated macrophages

ITGB7
3695
IFN-activated macrophages

LPL
4023
IFN-activated macrophages

LY6E
4061
IFN-activated macrophages

MT1E
4493
IFN-activated macrophages

MT1F
4494
IFN-activated macrophages

MT1G
4495
IFN-activated macrophages

MT1X
4501
IFN-activated macrophages

MT2A
4502
IFN-activated macrophages

OPTN
10133
IFN-activated macrophages

S100A8
6279
IFN-activated macrophages

SLAMF7
57823
IFN-activated macrophages

SPP1
6696
IFN-activated macrophages

TGM2
7052
IFN-activated macrophages

TIMP1
7076
IFN-activated macrophages

VCAN
1462
IFN-activated macrophages

WARS
7453
IFN-activated macrophages

ABCB10
23456
Phagocytic macrophages

ABCC3
8714
Phagocytic macrophages

ACAD9
28976
Phagocytic macrophages

ACSM5
54988
Phagocytic macrophages

ACTL6A
86
Phagocytic macrophages

ADAM12
8038
Phagocytic macrophages

ADORA3
140
Phagocytic macrophages

ADRB2
154
Phagocytic macrophages

AHNAK2
113146
Phagocytic macrophages

AIFM2
84883
Phagocytic macrophages

ALS2
57679
Phagocytic macrophages

ANKH
56172
Phagocytic macrophages

AP3M1
26985
Phagocytic macrophages

ARMC9
80210
Phagocytic macrophages

ARSB
411
Phagocytic macrophages

ASAP2
8853
Phagocytic macrophages

ASB1
51665
Phagocytic macrophages

B3GNT7
93010
Phagocytic macrophages

BLOC1S5
63915
Phagocytic macrophages

BRIX1
55299
Phagocytic macrophages

BTD
686
Phagocytic macrophages

C11orf68
83638
Phagocytic macrophages

CALU
813
Phagocytic macrophages

CCT5
22948
Phagocytic macrophages

CD109
135228
Phagocytic macrophages

CD276
80381
Phagocytic macrophages

CD28
940
Phagocytic macrophages

CD3EAP
10849
Phagocytic macrophages

CD9
928
Phagocytic macrophages

CDR2
1039
Phagocytic macrophages

CHST13
166012
Phagocytic macrophages

CRIP2
1397
Phagocytic macrophages

CRYBB1
1414
Phagocytic macrophages

CSPG4
1464
Phagocytic macrophages

CSTF2T
23283
Phagocytic macrophages

CTSK
1513
Phagocytic macrophages

CXADR
1525
Phagocytic macrophages

DAAM1
23002
Phagocytic macrophages

DCBLD2
131566
Phagocytic macrophages

DIP2C
22982
Phagocytic macrophages

DLEU7
220107
Phagocytic macrophages

DNM1
1759
Phagocytic macrophages

EFNB1
1947
Phagocytic macrophages

EMC1
23065
Phagocytic macrophages

EMP1
2012
Phagocytic macrophages

EPN2
22905
Phagocytic macrophages

ERMARD
55780
Phagocytic macrophages

EXOG
9941
Phagocytic macrophages

EXOSC8
11340
Phagocytic macrophages

EXTL2
2135
Phagocytic macrophages

EYA2
2139
Phagocytic macrophages

FAIM
55179
Phagocytic macrophages

FAM134B
54463
Phagocytic macrophages

FASTKD5
60493
Phagocytic macrophages

FBLN5
10516
Phagocytic macrophages

FBXO32
114907
Phagocytic macrophages

FERMT2
10979
Phagocytic macrophages

FGD5
152273
Phagocytic macrophages

FUCA1
2517
Phagocytic macrophages

FYCO1
79443
Phagocytic macrophages

GABRB2
2561
Phagocytic macrophages

GATB
5188
Phagocytic macrophages

GCHFR
2644
Phagocytic macrophages

GLDN
342035
Phagocytic macrophages

GNG12
55970
Phagocytic macrophages

GNPNAT1
64841
Phagocytic macrophages

GOT1
2805
Phagocytic macrophages

GPNMB
10457
Phagocytic macrophages

GPR34
2857
Phagocytic macrophages

GSDMA
284110
Phagocytic macrophages

GSTT1
2952
Phagocytic macrophages

HDHD1
8226
Phagocytic macrophages

HOXB6
3216
Phagocytic macrophages

HPGDS
27306
Phagocytic macrophages

HTRA1
5654
Phagocytic macrophages

IGSF21
84966
Phagocytic macrophages

ITGA6
3655
Phagocytic macrophages

ITGAE
3682
Phagocytic macrophages

ITGB5
3693
Phagocytic macrophages

KAL1
3730
Phagocytic macrophages

KANK1
23189
Phagocytic macrophages

KANK2
25959
Phagocytic macrophages

KCNQ3
3786
Phagocytic macrophages

KCTD10
83892
Phagocytic macrophages

KLF9
687
Phagocytic macrophages

L1TD1
54596
Phagocytic macrophages

LAMC1
3915
Phagocytic macrophages

LGI2
55203
Phagocytic macrophages

LGMN
5641
Phagocytic macrophages

LILRB5
10990
Phagocytic macrophages

LRRC8A
56262
Phagocytic macrophages

LZTR1
8216
Phagocytic macrophages

MCOLN3
55283
Phagocytic macrophages

MERTK
10461
Phagocytic macrophages

MLF1
4291
Phagocytic macrophages

MMD
23531
Phagocytic macrophages

MMP2
4313
Phagocytic macrophages

MRPS14
63931
Phagocytic macrophages

MRS2
57380
Phagocytic macrophages

MSMO1
6307
Phagocytic macrophages

MTUS1
57509
Phagocytic macrophages

NAA30
122830
Phagocytic macrophages

NAT9
26151
Phagocytic macrophages

NFU1
27247
Phagocytic macrophages

NRBP2
340371
Phagocytic macrophages

NUDCD2
134492
Phagocytic macrophages

OAT
4942
Phagocytic macrophages

OLFML3
56944
Phagocytic macrophages

PAQR5
54852
Phagocytic macrophages

PAX8
7849
Phagocytic macrophages

PDCD11
22984
Phagocytic macrophages

PDE1B
5153
Phagocytic macrophages

PDK4
5166
Phagocytic macrophages

PDPN
10630
Phagocytic macrophages

PGM2
55276
Phagocytic macrophages

PGM5
5239
Phagocytic macrophages

PIK3CG
5294
Phagocytic macrophages

PLEK2
26499
Phagocytic macrophages

PMP22
5376
Phagocytic macrophages

POLM
27434
Phagocytic macrophages

PPIP5K1
9677
Phagocytic macrophages

PPM1N
147699
Phagocytic macrophages

PRKCDBP
112464
Phagocytic macrophages

PROS1
5627
Phagocytic macrophages

PTGFRN
5738
Phagocytic macrophages

PTPRM
5797
Phagocytic macrophages

PTPRN2
5799
Phagocytic macrophages

PYCARD-AS1
1.01E+08
Phagocytic macrophages

RAB11FIP5
26056
Phagocytic macrophages

RAE1
8480
Phagocytic macrophages

RBP4
5950
Phagocytic macrophages

RGL3
57139
Phagocytic macrophages

RIOK1
83732
Phagocytic macrophages

RMDN3
55177
Phagocytic macrophages

RND3
390
Phagocytic macrophages

RPS6KA2
6196
Phagocytic macrophages

RRAGA
10670
Phagocytic macrophages

S1PR1
1901
Phagocytic macrophages

SEMA4B
10509
Phagocytic macrophages

SEPTIN10
151011
Phagocytic macrophages

SLC16A6
9120
Phagocytic macrophages

SLC1A3
6507
Phagocytic macrophages

SLC25A43
203427
Phagocytic macrophages

SLC26A11
284129
Phagocytic macrophages

SLC29A1
2030
Phagocytic macrophages

SLC43A3
29015
Phagocytic macrophages

SLC6A12
6539
Phagocytic macrophages

SNCA
6622
Phagocytic macrophages

ST5
6764
Phagocytic macrophages

STEAP3
55240
Phagocytic macrophages

SYT1
6857
Phagocytic macrophages

TBC1D2
55357
Phagocytic macrophages

TBCE
6905
Phagocytic macrophages

TDP2
51567
Phagocytic macrophages

TDRD10
126668
Phagocytic macrophages

TGFBR1
7046
Phagocytic macrophages

THRB
7068
Phagocytic macrophages

TIMM10
26519
Phagocytic macrophages

TMEM106C
79022
Phagocytic macrophages

TMEM119
338773
Phagocytic macrophages

TMEM255B
348013
Phagocytic macrophages

TNFAIP8L3
388121
Phagocytic macrophages

TNFRSF10D
8793
Phagocytic macrophages

TNFRSF11A
8792
Phagocytic macrophages

TNS1
7145
Phagocytic macrophages

TPPP3
51673
Phagocytic macrophages

TREML1
340205
Phagocytic macrophages

TRIM21
6737
Phagocytic macrophages

TRIM47
91107
Phagocytic macrophages

TRIM58
25893
Phagocytic macrophages

TUBB2A
7280
Phagocytic macrophages

TUBB6
84617
Phagocytic macrophages

TUBG1
7283
Phagocytic macrophages

TXNRD2
10587
Phagocytic macrophages

UEVLD
55293
Phagocytic macrophages

UNC5B
219699
Phagocytic macrophages

VANGL1
81839
Phagocytic macrophages

VPS33A
65082
Phagocytic macrophages

WDR12
55759
Phagocytic macrophages

WDR77
79084
Phagocytic macrophages

ZBED3-AS1
728723
Phagocytic macrophages

ZBTB7C
201501
Phagocytic macrophages

ZNF83
55769
Phagocytic macrophages

AK3
50808
M1

APOL1
8542
M1

APOL2
23780
M1

APOL3
80833
M1

APOL6
80830
M1

ATF3
467
M1

BCL2A1
597
M1

BIRC3
330
M1

CCL15
6359
M1

CCL19
6363
M1

CCL20
6364
M1

CCL5
6352
M1

CCR7
1236
M1

CHI3L2
1117
M1

CXCL10
3627
M1

CXCL11
6373
M1

CXCL9
4283
M1

EDN1
1906
M1

FAS
355
M1

GADD45G
10912
M1

HESX1
8820
M1

HSD11B1
3290
M1

IDO1
3620
M1

IGFBP4
3487
M1

IL12B
3593
M1

IL15
3600
M1

IL15RA
3601
M1

IL2RA
3559
M1

IL6
3569
M1

IL7R
3575
M1

INHBA
3624
M1

IRF1
3659
M1

IRF7
3665
M1

NAMPT
10135
M1

OAS2
4939
M1

OASL
8638
M1

PDGFA
5154
M1

PFKFB3
5209
M1

PFKP
5214
M1

PLA1A
51365
M1

PSMA2
5683
M1

PSMB9
5698
M1

PSME2
5721
M1

PTX3
5806
M1

SCO2
9997
M1

SLC2A6
11182
M1

SLC31A2
1318
M1

SLC7A5
8140
M1

SLCO5A1
81796
M1

SPHK1
8877
M1

TNF
7124
M1

TNFSF10
8743
M1

VCAN
1462
M1

XAF1
54739
M1

ADK
132
M2

ALOX15
246
M2

CA2
760
M2

CCL13
6357
M2

CCL18
6362
M2

CCL23
6368
M2

CD209
30835
M2

CD36
948
M2

CERK
64781
M2

CHN2
1124
M2

CLEC4F
165530
M2

CLEC7A
64581
M2

CTSC
1075
M2

CXCR4
7852
M2

DLC1
10395
M2

EGR2
1959
M2

FGL2
10875
M2

FN1
2335
M2

GAS7
8522
M2

HEXB
3074
M2

HNMT
3176
M2

HRH1
3269
M2

HS3ST1
9957
M2

HS3ST2
9956
M2

IGF1
3479
M2

LIPA
3988
M2

LPAR6
10161
M2

LTA4H
4048
M2

MAF
4094
M2

MRC1
4360
M2

MS4A4A
51338
M2

MS4A6A
64231
M2

MSR1
4481
M2

P2RY13
53829
M2

P2RY14
9934
M2

SELENOP
6414
M2

SLC38A6
145389
M2

SLC4A7
9497
M2

SLCO2B1
11309
M2

TGFBI
7045
M2

TGFBR2
7048
M2

TLR5
7100
M2

TPST2
8459
M2

ARAP2
116984
Martinez S4

ARID5B
84159
Martinez S4

ARNTL2
56938
Martinez S4

BATF3
55509
Martinez S4

CCL14
6358
Martinez S4

CCL8
6355
Martinez S4

CD274
29126
Martinez S4

CD38
952
Martinez S4

CFB
629
Martinez S4

CKB
1152
Martinez S4

CXCL13
10563
Martinez S4

EBI3
10148
Martinez S4

FBX06
26270
Martinez S4

GADD45A
1647
Martinez S4

GADD45B
4616
Martinez S4

GLS
2744
Martinez S4

GOLM1
51280
Martinez S4

GTDC1
79712
Martinez S4

IFI27
3429
Martinez S4

IFITM1
8519
Martinez S4

IL21R
50615
Martinez S4

IL32
9235
Martinez S4

JAK3
3718
Martinez S4

KCNJ2
3759
Martinez S4

LHFPL6
10186
Martinez S4

LY75
4065
Martinez S4

MMP12
4321
Martinez S4

MMP25
64386
Martinez S4

MT1M
4499
Martinez S4

N4BP1
9683
Martinez S4

NBN
4683
Martinez S4

PDCD1LG2
80380
Martinez S4

PXYLP1
92370
Martinez S4

RASGRP1
10125
Martinez S4

SERPINB9
5272
Martinez S4

SERPING1
710
Martinez S4

SLAMF1
6504
Martinez S4

SOCS1
8651
Martinez S4

ST7
7982
Martinez S4

TIFA
92610
Martinez S4

TSPAN33
340348
Martinez S4

VCAM1
7412
Martinez S4

ADAMTS14
140766
Martinez S5

CISH
1154
Martinez S5

GGT5
2687
Martinez S5

MAG11
9223
Martinez S5

MAOA
4128
Martinez S5

STAMBPL1
57559
Martinez S5

SULF2
55959
Martinez S5

TTC9C
283237
Martinez S5

CCL11
6356
RnD M1

CCL15
6359
RnD M1

CCL19
6363
RnD M1

CCL2
6347
RnD M1

CCL20
6364
RnD M1

CCL3
6348
RnD M1

CCL4
6351
RnD M1

CCL5
6352
RnD M1

CCL8
6355
RnD M1

CD163
9332
RnD M1

CD36
948
RnD M1

CD68
968
RnD M1

CD80
941
RnD M1

CD86
942
RnD M1

COX2
4513
RnD M1

CX3CL1
6376
RnD M1

CXCL1
2919
RnD M1

CXCL10
3627
RnD M1

CXCL11
6373
RnD M1

CXCL13
10563
RnD M1

CXCL16
58191
RnD M1

CXCL2
2920
RnD M1

CXCL3
2921
RnD M1

CXCL5
6374
RnD M1

CXCL9
4283
RnD M1

FCGR2A
2212
RnD M1

FCGR3A
2214
RnD M1

HLA-DRA
3122
RnD M1

HLA-DRB1
3123
RnD M1

IFNG
3458
RnD M1

IFNGR1
3459
RnD M1

IL12A
3592
RnD M1

IL12B
3593
RnD M1

IL15
3600
RnD M1

IL17A
3605
RnD M1

IL18
3606
RnD M1

IL1B
3553
RnD M1

IL23A
51561
RnD M1

IL6
3569
RnD M1

IL8
3576
RnD M1

IRF5
3663
RnD M1

NOS2
4843
RnD M1

STAT1
6772
RnD M1

TNF
7124
RnD M1

ARG1
383
RnD M2a

CCL1
6346
RnD M2a

CCL14
6358
RnD M2a

CCL17
6361
RnD M2a

CCL18
6362
RnD M2a

CCL2
6347
RnD M2a

CCL22
6367
RnD M2a

CCL23
6368
RnD M2a

CCL24
6369
RnD M2a

CCL26
10344
RnD M2a

CD163
9332
RnD M2a

CD200R1
131450
RnD M2a

CD200R1L
344807
RnD M2a

CD209
30835
RnD M2a

CHI3L1
1116
RnD M2a

CLEC10A
10462
RnD M2a

CLEC7A
64581
RnD M2a

CXCR1
3577
RnD M2a

CXCR2
3579
RnD M2a

FCER1A
2205
RnD M2a

HLA-DRA
3122
RnD M2a

HLA-DRB1
3123
RnD M2a

IL10
3586
RnD M2a

IL12A
3592
RnD M2a

IL12B
3593
RnD M2a

IL1R2
7850
RnD M2a

IL1RN
3557
RnD M2a

IRF4
3662
RnD M2a

MRC1
4360
RnD M2a

PPARG
5468
RnD M2a

RETNLB
84666
RnD M2a

STAT6
6778
RnD M2a

TGFB1
7040
RnD M2a

CD86
942
RnD M2b

CCL1
6346
RnD M2b

CCL20
6364
RnD M2b

COX2
4513
RnD M2b

CXCL1
2919
RnD M2b

CXCL2
2920
RnD M2b

CXCL3
2921
RnD M2b

CSF3
1440
RnD M2b

CSF2
1437
RnD M2b

IL1B
3553
RnD M2b

IL4R
3566
RnD M2b

IL6
3569
RnD M2b

IL10
3586
RnD M2b

IRF4
3662
RnD M2b

HLA-DRA
3122
RnD M2b

HLA-DRB1
3123
RnD M2b

SOCS3
9021
RnD M2b

SPHK1
8877
RnD M2b

SPHK2
56848
RnD M2b

TNF
7124
RnD M2b

ARG1
383
RnD M2c

CCL16
6360
RnD M2c

CCL18
6362
RnD M2c

CCR2
729230
RnD M2c

CD163
9332
RnD M2c

CXCL13
10563
RnD M2c

IL10
3586
RnD M2c

IL4R
3566
RnD M2c

INHBA
3624
RnD M2c

IRF4
3662
RnD M2c

MRC1
4360
RnD M2c

MSR1
4481
RnD M2c

SCARB1
949
RnD M2c

SLAMF1
6504
RnD M2c

SOCS3
9021
RnD M2c

TGFB1
7040
RnD M2c

TLR1
7096
RnD M2c

TLR8
51311
RnD M2c

CCL5
6352
RnD M2d

CXCL10
3627
RnD M2d

CXCL16
58191
RnD M2d

IL10
3586
RnD M2d

IL12A
3592
RnD M2d

IL12B
3593
RnD M2d

NOS2
4843
RnD M2d

TNF
7124
RnD M2d

VEGF
7422
RnD M2d

APOE
348
Reyman alveolar macrophage top 12

CCL2
6347
Reyman alveolar macrophage top 12

CD36
948
Reyman alveolar macrophage top 12

CHI3L1
1116
Reyman alveolar macrophage top 12

FN1
2335
Reyman alveolar macrophage top 12

IL1RN
3557
Reyman alveolar macrophage top 12

MARCKS
4082
Reyman alveolar macrophage top 12

PLA2G7
7941
Reyman alveolar macrophage top 12

S100A8
6279
Reyman alveolar macrophage top 12

SPP1
6696
Reyman alveolar macrophage top 12

TIMP1
7076
Reyman alveolar macrophage top 12

TREM2
54209
Reyman alveolar macrophage top 12

A2M
2
Reyman alveolar macrophage complete UP

ABCA1
19
Reyman alveolar macrophage complete UP

ABHD2
11057
Reyman alveolar macrophage complete UP

ACP2
53
Reyman alveolar macrophage complete UP

ACTB
60
Reyman alveolar macrophage complete UP

ACTG1
71
Reyman alveolar macrophage complete UP

ADGRE5
976
Reyman alveolar macrophage complete UP

ANXA2
302
Reyman alveolar macrophage complete UP

APOC1
341
Reyman alveolar macrophage complete UP

APOE
348
Reyman alveolar macrophage complete UP

ARHGDIB
397
Reyman alveolar macrophage complete UP

ARID5B
84159
Reyman alveolar macrophage complete UP

ARPC1B
10095
Reyman alveolar macrophage complete UP

ATOX1
475
Reyman alveolar macrophage complete UP

ATP13A3
79572
Reyman alveolar macrophage complete UP

ATP6V1B2
526
Reyman alveolar macrophage complete UP

BASP1
10409
Reyman alveolar macrophage complete UP

BCAT1
586
Reyman alveolar macrophage complete UP

C15orf48
84419
Reyman alveolar macrophage complete UP

C6orf62
81688
Reyman alveolar macrophage complete UP

CALM3
808
Reyman alveolar macrophage complete UP

CALR
811
Reyman alveolar macrophage complete UP

CAP1
10487
Reyman alveolar macrophage complete UP

CCL18
6362
Reyman alveolar macrophage complete UP

CCL2
6347
Reyman alveolar macrophage complete UP

CCL4
6351
Reyman alveolar macrophage complete UP

CD14
929
Reyman alveolar macrophage complete UP

CD36
948
Reyman alveolar macrophage complete UP

CD4
920
Reyman alveolar macrophage complete UP

CD44
960
Reyman alveolar macrophage complete UP

CD48
962
Reyman alveolar macrophage complete UP

CD84
8832
Reyman alveolar macrophage complete UP

CD9
928
Reyman alveolar macrophage complete UP

CDC42
998
Reyman alveolar macrophage complete UP

CFL1
1072
Reyman alveolar macrophage complete UP

CHI3L1
1116
Reyman alveolar macrophage complete UP

CHIT1
1118
Reyman alveolar macrophage complete UP

CLTC
1213
Reyman alveolar macrophage complete UP

CMTM3
123920
Reyman alveolar macrophage complete UP

CMTM6
54918
Reyman alveolar macrophage complete UP

COTL1
23406
Reyman alveolar macrophage complete UP

CPM
1368
Reyman alveolar macrophage complete UP

CRIP1
1396
Reyman alveolar macrophage complete UP

CSF1R
1436
Reyman alveolar macrophage complete UP

CTSB
1508
Reyman alveolar macrophage complete UP

CTSL
1514
Reyman alveolar macrophage complete UP

CTSZ
1522
Reyman alveolar macrophage complete UP

CYBB
1536
Reyman alveolar macrophage complete UP

CYFIP1
23191
Reyman alveolar macrophage complete UP

DPYSL2
1808
Reyman alveolar macrophage complete UP

EMP1
2012
Reyman alveolar macrophage complete UP

EVL
51466
Reyman alveolar macrophage complete UP

FCGR2A
2212
Reyman alveolar macrophage complete UP

FCGR2B
2213
Reyman alveolar macrophage complete UP

FCGR3A
2214
Reyman alveolar macrophage complete UP

FGL2
10875
Reyman alveolar macrophage complete UP

FKBP1A
2280
Reyman alveolar macrophage complete UP

FLNA
2316
Reyman alveolar macrophage complete UP

FN1
2335
Reyman alveolar macrophage complete UP

FPR3
2359
Reyman alveolar macrophage complete UP

FUCA1
2517
Reyman alveolar macrophage complete UP

FXYD5
53827
Reyman alveolar macrophage complete UP

FYB
2533
Reyman alveolar macrophage complete UP

GBP1
2633
Reyman alveolar macrophage complete UP

GLIPR1
11010
Reyman alveolar macrophage complete UP

GM2A
2760
Reyman alveolar macrophage complete UP

GSN
2934
Reyman alveolar macrophage complete UP

HCK
3055
Reyman alveolar macrophage complete UP

HCST
10870
Reyman alveolar macrophage complete UP

HIF1A
3091
Reyman alveolar macrophage complete UP

HLA-A
3105
Reyman alveolar macrophage complete UP

HLA-DQA2
3118
Reyman alveolar macrophage complete UP

HMGN1
3150
Reyman alveolar macrophage complete UP

IGF2R
3482
Reyman alveolar macrophage complete UP

IGHG1
3500
Reyman alveolar macrophage complete UP

IGHG3
3502
Reyman alveolar macrophage complete UP

IGHG4
3503
Reyman alveolar macrophage complete UP

IGKC
3514
Reyman alveolar macrophage complete UP

IGLC2
3538
Reyman alveolar macrophage complete UP

IGSF6
10261
Reyman alveolar macrophage complete UP

IL1RN
3557
Reyman alveolar macrophage complete UP

IL7R
3575
Reyman alveolar macrophage complete UP

ITGAM
3684
Reyman alveolar macrophage complete UP

ITGAX
3687
Reyman alveolar macrophage complete UP

ITGB1
3688
Reyman alveolar macrophage complete UP

ITGB2
3689
Reyman alveolar macrophage complete UP

KIAA0930
23313
Reyman alveolar macrophage complete UP

LAP3
51056
Reyman alveolar macrophage complete UP

LASP1
3927
Reyman alveolar macrophage complete UP

LCP1
3936
Reyman alveolar macrophage complete UP

LDHA
3939
Reyman alveolar macrophage complete UP

LGMN
5641
Reyman alveolar macrophage complete UP

LHFPL2
10184
Reyman alveolar macrophage complete UP

LILRB4
11006
Reyman alveolar macrophage complete UP

LIPA
3988
Reyman alveolar macrophage complete UP

LITAF
9516
Reyman alveolar macrophage complete UP

LSP1
4046
Reyman alveolar macrophage complete UP

LST1
7940
Reyman alveolar macrophage complete UP

MAFB
9935
Reyman alveolar macrophage complete UP

MARCKS
4082
Reyman alveolar macrophage complete UP

MNDA
4332
Reyman alveolar macrophage complete UP

MS4A4A
51338
Reyman alveolar macrophage complete UP

MS4A6A
64231
Reyman alveolar macrophage complete UP

MT-ATP6
4508
Reyman alveolar macrophage complete UP

MT-ATP8
4509
Reyman alveolar macrophage complete UP

MT-CO3
4514
Reyman alveolar macrophage complete UP

MT-ND3
4537
Reyman alveolar macrophage complete UP

MT-ND6
4541
Reyman alveolar macrophage complete UP

NPC2
10577
Reyman alveolar macrophage complete UP

NR1H3
10062
Reyman alveolar macrophage complete UP

NRP2
8828
Reyman alveolar macrophage complete UP

OLR1
4973
Reyman alveolar macrophage complete UP

P4HB
5034
Reyman alveolar macrophage complete UP

PDIA4
9601
Reyman alveolar macrophage complete UP

PEA15
8682
Reyman alveolar macrophage complete UP

PGK1
5230
Reyman alveolar macrophage complete UP

PLA2G7
7941
Reyman alveolar macrophage complete UP

PLAC8
51316
Reyman alveolar macrophage complete UP

PLEK
5341
Reyman alveolar macrophage complete UP

PPT1
5538
Reyman alveolar macrophage complete UP

PSAP
5660
Reyman alveolar macrophage complete UP

QSOX1
5768
Reyman alveolar macrophage complete UP

RAB31
11031
Reyman alveolar macrophage complete UP

RALA
5898
Reyman alveolar macrophage complete UP

RGS1
5996
Reyman alveolar macrophage complete UP

RNASE1
6035
Reyman alveolar macrophage complete UP

S100A8
6279
Reyman alveolar macrophage complete UP

S100A9
6280
Reyman alveolar macrophage complete UP

SAMHD1
25939
Reyman alveolar macrophage complete UP

SCGB3A1
92304
Reyman alveolar macrophage complete UP

SDC2
6383
Reyman alveolar macrophage complete UP

SDS
10993
Reyman alveolar macrophage complete UP

SEPP1
6414
Reyman alveolar macrophage complete UP

SGK1
6446
Reyman alveolar macrophage complete UP

SH3BGRL3
83442
Reyman alveolar macrophage complete UP

SLA
6503
Reyman alveolar macrophage complete UP

SLC16A10
117247
Reyman alveolar macrophage complete UP

SLC1A3
6507
Reyman alveolar macrophage complete UP

SMIM3
85027
Reyman alveolar macrophage complete UP

SOD2
6648
Reyman alveolar macrophage complete UP

SPARC
6678
Reyman alveolar macrophage complete UP

SPP1
6696
Reyman alveolar macrophage complete UP

SRGN
5552
Reyman alveolar macrophage complete UP

SRSF2
6427
Reyman alveolar macrophage complete UP

STAT1
6772
Reyman alveolar macrophage complete UP

TGFBI
7045
Reyman alveolar macrophage complete UP

TGM2
7052
Reyman alveolar macrophage complete UP

TIMP1
7076
Reyman alveolar macrophage complete UP

TLN1
7094
Reyman alveolar macrophage complete UP

TMEM176B
28959
Reyman alveolar macrophage complete UP

TMSB10
9168
Reyman alveolar macrophage complete UP

TMSB4X
7114
Reyman alveolar macrophage complete UP

TNFSF13B
10673
Reyman alveolar macrophage complete UP

TPM3
7170
Reyman alveolar macrophage complete UP

TPM4
7171
Reyman alveolar macrophage complete UP

TPP1
1200
Reyman alveolar macrophage complete UP

TREM2
54209
Reyman alveolar macrophage complete UP

TTYH3
80727
Reyman alveolar macrophage complete UP

TUBA1B
10376
Reyman alveolar macrophage complete UP

TYMP
1890
Reyman alveolar macrophage complete UP

UCP2
7351
Reyman alveolar macrophage complete UP

VAMP5
10791
Reyman alveolar macrophage complete UP

VMP1
81671
Reyman alveolar macrophage complete UP

WARS
7453
Reyman alveolar macrophage complete UP

WASF2
10163
Reyman alveolar macrophage complete UP

ZFP36L1
677
Reyman alveolar macrophage complete UP

Table of Liao et al Clusters

GeneSymbol
Cluster
ENTREZID

S100A9
G1
6280

S100A8
G1
6279

S100A12
G1
6283

VCAN
G1
1462

FCN1
G1
2219

CORO1A
G1
11151

SELL
G1
6402

CD14
G1
929

CFP
G1
5199

RNASE2
G1
6036

SERPINB1
G1
1992

FPR1
G1
2357

COTL1
G1
23406

MPEG1
G1
219972

LST1
G1
7940

STAB1
G1
23166

RNASE6
G1
6039

MS4A6A
G1
64231

IL1RN
G1 & G2
3557

CCL7
G1 & G2
6354

IFITM2
G1 & G2
10581

IFIT2
G1 & G2
3433

PLAC8
G1 & G2
51316

IFIT3
G1 & G2
3437

SERPINB9
G1 & G2
5272

NAMPT
G1 & G2
10135

LILRA5
G1 & G2
353514

IER2
G1 & G2
9592

IFITM3
G1 & G2
10410

MX1
G1 & G2
4599

NFKBIA
G1 & G2
4792

ANXA2R
G1 & G2
389289

RSAD2
G1 & G2
91543

IFIT1
G1 & G2
3434

DUSP6
G1 & G2
1848

ACTB
G1 & G2
60

SLC25A37
G2
51312

TNFSF10
G2
8743

CLU
G2
1191

CXCL10
G2
3627

APOBEC3A
G2
200315

CCL3L1
G2
6349

FFAR2
G2
2867

HSPA6
G2
3310

CCL2
G2
6347

HSPA1A
G2
3303

CCL8
G2
6355

DNAJB1
G2
3337

HSPA1B
G2
3304

CCL4
G2
6351

CCL3
G2
6348

CCL4L2
G2
9560

HSPB1
G2
3315

IDO1
G2
3620

ISG15
G2
9636

ISG20
G2
3669

TIMP1
G2
7076

NINJ1
G2
4814

VAMP5
G2
10791

CYP1B1
G2
1545

HSPH1
G2
10808

TYMP
G2
1890

CXCL11
G2
6373

WARS1
G2
7453

BAG3
G2
9531

GBP1
G2
2633

SOD2
G2
6648

HSP90AA1
G2
3320

BCL2A1
G2
597

GBP5
G2
115362

PLEK
G2
5341

NCF1
G2
653361

CALHM6
G2
441168

SLAMF7
G2
57823

SGK1
G2
6446

DEFB1
G2
1672

ANKRD22
G2
118932

GCH1
G2
2643

PLA2G7
G2
7941

CTSB
G2
1508

HAMP
G3
57817

LGMN
G3
5641

RGS1
G3
5996

SPP1
G3
6696

RNASE1
G3
6035

HMOX1
G3
3162

GPR183
G3
1880

ARL4C
G3
10123

C1QC
G3
714

SDS
G3
10993

TGFB1
G3
7040

A2M
G3
2

FPR3
G3
2359

CD84
G3
8832

NRP2
G3
8828

CREG1
G3
8804

SDC3
G3
9672

CTSL
G3
1514

MMP14
G3
4323

SMPDL3A
G3
10924

PMP22
G3
5376

PLD3
G3
23646

LIPA
G3
3988

MS4A4A
G3
51338

CSF1R
G3
1436

CD86
G3
942

GPNMB
G3
10457

CREM
G3
1390

APOE
G3
348

HSP90B1
G3
7184

C1QB
G3
713

CCL18
G3
6362

IL7R
G3
3575

CXCL8
G3
3576

IFITM1
G3
8519

FABP5
G4
2171

FABP4
G4
2167

NUPR1
G4
26471

APOC1
G4
341

GCHFR
G4
2644

INHBA
G4
3624

ALOX5AP
G4
241

ALDH2
G4
217

CD52
G4
1043

HLA-DQA1
G4
3117

HLA-DQB1
G4
3119

LPL
G4
4023

MCEMP1
G4
199675

MARCO
G4
8685

TFRC
G4
7037

HPGD
G4
3248

FBP1
G4
2203

RBP3
G4
5949

ACP5
G4
54

PEBP1
G4
5037

MSR1
G4
4481

MRC1
G4
4360

AKR1C3
G4
8644

Table of PPI Putative Myeloid Population

geneSymbol
EntrezID
Category

PLD3
23646
PPI PBMC Myeloid Subcluster 1

NMNAT1
64802
PPI PBMC Myeloid Subcluster 1

CSGALNACT2
55454
PPI PBMC Myeloid Subcluster 1

DSE
29940
PPI PBMC Myeloid Subcluster 1

MLEC
9761
PPI PBMC Myeloid Subcluster 1

DNAJC5
80331
PPI PBMC Myeloid Subcluster 1

ALDH3B1
221
PPI PBMC Myeloid Subcluster 1

AGPAT2
10555
PPI PBMC Myeloid Subcluster 1

QSOX1
5768
PPI PBMC Myeloid Subcluster 1

SLC2A5
6518
PPI PBMC Myeloid Subcluster 1

MFGE8
4240
PPI PBMC Myeloid Subcluster 1

BST1
683
PPI PBMC Myeloid Subcluster 1

VAMP8
8673
PPI PBMC Myeloid Subcluster 1

HVCN1
84329
PPI PBMC Myeloid Subcluster 1

ATP11A
23250
PPI PBMC Myeloid Subcluster 1

IGFBP7
3490
PPI PBMC Myeloid Subcluster 1

F5
2153
PPI PBMC Myeloid Subcluster 1

VCAN
1462
PPI PBMC Myeloid Subcluster 1

CD93
22918
PPI PBMC Myeloid Subcluster 1

LGALS1
3956
PPI PBMC Myeloid Subcluster 1

TIMP1
7076
PPI PBMC Myeloid Subcluster 1

RAB44
401258
PPI PBMC Myeloid Subcluster 1

CLEC4D
338339
PPI PBMC Myeloid Subcluster 1

MERTK
10461
PPI PBMC Myeloid Subcluster 1

GAS6
2621
PPI PBMC Myeloid Subcluster 1

CLEC5A
23601
PPI PBMC Myeloid Subcluster 1

LRP8
7804
PPI PBMC Myeloid Subcluster 1

MCEMP1
199675
PPI PBMC Myeloid Subcluster 1

CLEC12A
160364
PPI PBMC Myeloid Subcluster 1

APOE
348
PPI PBMC Myeloid Subcluster 1

CD36
948
PPI PBMC Myeloid Subcluster 1

PLD1
5337
PPI PBMC Myeloid Subcluster 1

CD33
945
PPI PBMC Myeloid Subcluster 1

LAIR1
3903
PPI PBMC Myeloid Subcluster 1

FSTL3
10272
PPI PBMC Myeloid Subcluster 1

BACE1
23621
PPI PBMC Myeloid Subcluster 1

CST3
1471
PPI PBMC Myeloid Subcluster 1

CYBB
1536
PPI PBMC Myeloid Subcluster 1

NUCB1
4924
PPI PBMC Myeloid Subcluster 1

C3AR1
719
PPI PBMC Myeloid Subcluster 1

APLP2
334
PPI PBMC Myeloid Subcluster 1

APP
351
PPI PBMC Myeloid Subcluster 1

ITGB2
3689
PPI PBMC Myeloid Subcluster 1

ITGAM
3684
PPI PBMC Myeloid Subcluster 1

LAMC1
3915
PPI PBMC Myeloid Subcluster 1

LAMB2
3913
PPI PBMC Myeloid Subcluster 1

PCSK9
255738
PPI PBMC Myeloid Subcluster 1

FN1
2335
PPI PBMC Myeloid Subcluster 1

FAM20C
56975
PPI PBMC Myeloid Subcluster 1

FAM20A
54757
PPI PBMC Myeloid Subcluster 1

CALU
813
PPI PBMC Myeloid Subcluster 1

P4HB
5034
PPI PBMC Myeloid Subcluster 1

PDIA6
10130
PPI PBMC Myeloid Subcluster 1

ATP6V1D
51382
PPI PBMC Myeloid Subcluster 1

LAMTOR2
28956
PPI PBMC Myeloid Subcluster 1

VPS11
55823
PPI PBMC Myeloid Subcluster 3

UBE2L3
7332
PPI PBMC Myeloid Subcluster 3

GPER1
2852
PPI PBMC Myeloid Subcluster 3

S1PR3
1903
PPI PBMC Myeloid Subcluster 3

MT2A
4502
PPI PBMC Myeloid Subcluster 3

HEBP1
50865
PPI PBMC Myeloid Subcluster 3

SAMHD1
25939
PPI PBMC Myeloid Subcluster 3

OPN3
23596
PPI PBMC Myeloid Subcluster 3

GNG5
2787
PPI PBMC Myeloid Subcluster 3

CXCL10
3627
PPI PBMC Myeloid Subcluster 3

TBC1D2
55357
PPI PBMC Myeloid Subcluster 3

IRF5
3663
PPI PBMC Myeloid Subcluster 3

ADORA3
140
PPI PBMC Myeloid Subcluster 3

CCR2
729230
PPI PBMC Myeloid Subcluster 3

IFITM3
10410
PPI PBMC Myeloid Subcluster 3

FPR3
2359
PPI PBMC Myeloid Subcluster 3

IRF8
3394
PPI PBMC Myeloid Subcluster 3

RAB7A
7879
PPI PBMC Myeloid Subcluster 3

CCZ1
51622
PPI PBMC Myeloid Subcluster 3

CCR1
1230
PPI PBMC Myeloid Subcluster 3

IFI35
3430
PPI PBMC Myeloid Subcluster 3

FCGR1B
2210
PPI PBMC Myeloid Subcluster 3

IFI6
2537
PPI PBMC Myeloid Subcluster 3

RSAD2
91543
PPI PBMC Myeloid Subcluster 3

MX1
4599
PPI PBMC Myeloid Subcluster 3

GALK2
2585
PPI PBMC Myeloid Subcluster 4

CTSB
1508
PPI PBMC Myeloid Subcluster 4

CTSL
1514
PPI PBMC Myeloid Subcluster 4

SGMS2
166929
PPI PBMC Myeloid Subcluster 4

METTL7A
25840
PPI PBMC Myeloid Subcluster 4

ASAH1
427
PPI PBMC Myeloid Subcluster 4

MMP17
4326
PPI PBMC Myeloid Subcluster 4

CFP
5199
PPI PBMC Myeloid Subcluster 4

CTSS
1520
PPI PBMC Myeloid Subcluster 4

NIPA2
81614
PPI PBMC Myeloid Subcluster 4

C5
727
PPI PBMC Myeloid Subcluster 4

IDH1
3417
PPI PBMC Myeloid Subcluster 4

LTA4H
4048
PPI PBMC Myeloid Subcluster 4

ALDOA
226
PPI PBMC Myeloid Subcluster 4

CTSD
1509
PPI PBMC Myeloid Subcluster 4

HP
3240
PPI PBMC Myeloid Subcluster 4

CTSH
1512
PPI PBMC Myeloid Subcluster 4

CSTB
1476
PPI PBMC Myeloid Subcluster 4

TIMP2
7077
PPI PBMC Myeloid Subcluster 4

MMP14
4323
PPI PBMC Myeloid Subcluster 4

HLA-DQA1
3117
PPI PBMC Myeloid Subcluster 4

HLA-DRA
3122
PPI PBMC Myeloid Subcluster 4

FCGR1A
2209
PPI PBMC Myeloid Subcluster 4

CYFIP1
23191
PPI PBMC Myeloid Subcluster 4

NACA2
342538
PPI PBMC Myeloid Subcluster 5

NCAPH
23397
PPI PBMC Myeloid Subcluster 5

PER1
5187
PPI PBMC Myeloid Subcluster 5

PPP1R3D
5509
PPI PBMC Myeloid Subcluster 5

TP53BP2
7159
PPI PBMC Myeloid Subcluster 5

CMPK2
129607
PPI PBMC Myeloid Subcluster 5

RCC2
55920
PPI PBMC Myeloid Subcluster 5

MAPRE1
22919
PPI PBMC Myeloid Subcluster 5

NUP37
79023
PPI PBMC Myeloid Subcluster 5

POLQ
10721
PPI PBMC Myeloid Subcluster 5

PPP1CC
5501
PPI PBMC Myeloid Subcluster 5

OAS2
4939
PPI PBMC Myeloid Subcluster 5

OAS3
4940
PPI PBMC Myeloid Subcluster 5

OAS1
4938
PPI PBMC Myeloid Subcluster 5

OASL
8638
PPI PBMC Myeloid Subcluster 5

FEN1
2237
PPI PBMC Myeloid Subcluster 5

PCNA
5111
PPI PBMC Myeloid Subcluster 5

CDT1
81620
PPI PBMC Myeloid Subcluster 5

MCM2
4171
PPI PBMC Myeloid Subcluster 5

CDC6
990
PPI PBMC Myeloid Subcluster 5

ORC1
4998
PPI PBMC Myeloid Subcluster 5

MCM4
4173
PPI PBMC Myeloid Subcluster 5

MARCO
8685
PPI PBMC Myeloid Subcluster 6

CCDC47
57003
PPI PBMC Myeloid Subcluster 6

MPEG1
219972
PPI PBMC Myeloid Subcluster 6

ALOX5
240
PPI PBMC Myeloid Subcluster 6

TLR5
7100
PPI PBMC Myeloid Subcluster 6

IKBKE
9641
PPI PBMC Myeloid Subcluster 6

MRC1
4360
PPI PBMC Myeloid Subcluster 6

C2
717
PPI PBMC Myeloid Subcluster 6

TLR2
7097
PPI PBMC Myeloid Subcluster 6

CD14
929
PPI PBMC Myeloid Subcluster 6

IRAK3
11213
PPI PBMC Myeloid Subcluster 6

IRAK1
3654
PPI PBMC Myeloid Subcluster 6

S100A12
6283
PPI PBMC Myeloid Subcluster 6

TLR4
7099
PPI PBMC Myeloid Subcluster 6

MYD88
4615
PPI PBMC Myeloid Subcluster 6

CD180
4064
PPI PBMC Myeloid Subcluster 6

LY86
9450
PPI PBMC Myeloid Subcluster 6

S100A8
6279
PPI PBMC Myeloid Subcluster 6

S100A9
6280
PPI PBMC Myeloid Subcluster 6

C1QC
714
PPI PBMC Myeloid Subcluster 6

C1QB
713
PPI PBMC Myeloid Subcluster 6

C1QA
712
PPI PBMC Myeloid Subcluster 6

MLKL
197259
PPI PBMC Myeloid Subcluster 13

PTBP2
58155
PPI PBMC Myeloid Subcluster 13

NLRP3
114548
PPI PBMC Myeloid Subcluster 13

CARD16
114769
PPI PBMC Myeloid Subcluster 13

IL18
3606
PPI PBMC Myeloid Subcluster 13

CASP1
834
PPI PBMC Myeloid Subcluster 13

NLRC4
58484
PPI PBMC Myeloid Subcluster 13

NAIP
4671
PPI PBMC Myeloid Subcluster 13

ADRA2A
150
PPI Lung Myeloid Subcluster 1

BCL3
602
PPI Lung Myeloid Subcluster 1

C3AR1
719
PPI Lung Myeloid Subcluster 1

C5AR1
728
PPI Lung Myeloid Subcluster 1

CCL15
6359
PPI Lung Myeloid Subcluster 1

CCL19
6363
PPI Lung Myeloid Subcluster 1

CCL3
6348
PPI Lung Myeloid Subcluster 1

CCL4
6351
PPI Lung Myeloid Subcluster 1

CCR1
1230
PPI Lung Myeloid Subcluster 1

CCRL2
9034
PPI Lung Myeloid Subcluster 1

CMPK2
129607
PPI Lung Myeloid Subcluster 1

CXCL10
3627
PPI Lung Myeloid Subcluster 1

CXCL11
6373
PPI Lung Myeloid Subcluster 1

CXCL16
58191
PPI Lung Myeloid Subcluster 1

CXCR2
3579
PPI Lung Myeloid Subcluster 1

DDX58
23586
PPI Lung Myeloid Subcluster 1

DDX60
55601
PPI Lung Myeloid Subcluster 1

DDX60L
91351
PPI Lung Myeloid Subcluster 1

DRD2
1813
PPI Lung Myeloid Subcluster 1

EIF2AK2
5610
PPI Lung Myeloid Subcluster 1

EPSTI1
94240
PPI Lung Myeloid Subcluster 1

FPR1
2357
PPI Lung Myeloid Subcluster 1

FPR2
2358
PPI Lung Myeloid Subcluster 1

GNG2
54331
PPI Lung Myeloid Subcluster 1

GNG5
2787
PPI Lung Myeloid Subcluster 1

GPR37L1
9283
PPI Lung Myeloid Subcluster 1

GPSM3
63940
PPI Lung Myeloid Subcluster 1

HCAR1
27198
PPI Lung Myeloid Subcluster 1

HCAR2
338442
PPI Lung Myeloid Subcluster 1

HELZ2
85441
PPI Lung Myeloid Subcluster 1

HERC5
51191
PPI Lung Myeloid Subcluster 1

HERC6
55008
PPI Lung Myeloid Subcluster 1

HLA-A
3105
PPI Lung Myeloid Subcluster 1

HLA-B
3106
PPI Lung Myeloid Subcluster 1

HTR1A
3350
PPI Lung Myeloid Subcluster 1

IDO1
3620
PPI Lung Myeloid Subcluster 1

IFI44
10561
PPI Lung Myeloid Subcluster 1

IFI44L
10964
PPI Lung Myeloid Subcluster 1

IFI6
2537
PPI Lung Myeloid Subcluster 1

IFIH1
64135
PPI Lung Myeloid Subcluster 1

IFIT1
3434
PPI Lung Myeloid Subcluster 1

IFIT1B
439996
PPI Lung Myeloid Subcluster 1

IFIT2
3433
PPI Lung Myeloid Subcluster 1

IFIT3
3437
PPI Lung Myeloid Subcluster 1

IFIT5
24138
PPI Lung Myeloid Subcluster 1

IFITM1
8519
PPI Lung Myeloid Subcluster 1

IFITM2
10581
PPI Lung Myeloid Subcluster 1

IFITM3
10410
PPI Lung Myeloid Subcluster 1

IL27
246778
PPI Lung Myeloid Subcluster 1

IRF2
3660
PPI Lung Myeloid Subcluster 1

IRF7
3665
PPI Lung Myeloid Subcluster 1

ISG15
9636
PPI Lung Myeloid Subcluster 1

KCNJ2
3759
PPI Lung Myeloid Subcluster 1

MX1
4599
PPI Lung Myeloid Subcluster 1

MX2
4600
PPI Lung Myeloid Subcluster 1

OAS1
4938
PPI Lung Myeloid Subcluster 1

OAS2
4939
PPI Lung Myeloid Subcluster 1

OAS3
4940
PPI Lung Myeloid Subcluster 1

OASL
8638
PPI Lung Myeloid Subcluster 1

P2RY13
53829
PPI Lung Myeloid Subcluster 1

P2RY14
9934
PPI Lung Myeloid Subcluster 1

RSAD2
91543
PPI Lung Myeloid Subcluster 1

RTP4
64108
PPI Lung Myeloid Subcluster 1

SAA1
6288
PPI Lung Myeloid Subcluster 1

SAMD9
54809
PPI Lung Myeloid Subcluster 1

SAMD9L
219285
PPI Lung Myeloid Subcluster 1

SP110
3431
PPI Lung Myeloid Subcluster 1

STAT1
6772
PPI Lung Myeloid Subcluster 1

STAT2
6773
PPI Lung Myeloid Subcluster 1

SUCNR1
56670
PPI Lung Myeloid Subcluster 1

TNFSF10
8743
PPI Lung Myeloid Subcluster 1

UBE2L6
9246
PPI Lung Myeloid Subcluster 1

USP15
9958
PPI Lung Myeloid Subcluster 1

USP18
11274
PPI Lung Myeloid Subcluster 1

XAF1
54739
PPI Lung Myeloid Subcluster 1

ZBP1
81030
PPI Lung Myeloid Subcluster 1

CCL2
6347
PPI Lung Myeloid Subcluster 2

CCL7
6354
PPI Lung Myeloid Subcluster 2

CDA
978
PPI Lung Myeloid Subcluster 2

CHI3L1
1116
PPI Lung Myeloid Subcluster 2

CHIT1
1118
PPI Lung Myeloid Subcluster 2

CRISP3
10321
PPI Lung Myeloid Subcluster 2

FLG2
388698
PPI Lung Myeloid Subcluster 2

HBB
3043
PPI Lung Myeloid Subcluster 2

HP
3240
PPI Lung Myeloid Subcluster 2

LCN2
3934
PPI Lung Myeloid Subcluster 2

LTF
4057
PPI Lung Myeloid Subcluster 2

MMP8
4317
PPI Lung Myeloid Subcluster 2

PGLYRP1
8993
PPI Lung Myeloid Subcluster 2

TCN1
6947
PPI Lung Myeloid Subcluster 2

MAP2K6
5608
PPI Lung Myeloid Subcluster 8

MCTS1
28985
PPI Lung Myeloid Subcluster 8

PSMA4
5685
PPI Lung Myeloid Subcluster 8

PSME3
10197
PPI Lung Myeloid Subcluster 8

TNF
7124
PPI Lung Myeloid Subcluster 8

TNFSF13B
10673
PPI Lung Myeloid Subcluster 8

TNFSF14
8740
PPI Lung Myeloid Subcluster 8

TP73
7161
PPI Lung Myeloid Subcluster 8

AIM2
9447
PPI Lung Myeloid Subcluster 9

CASP4
837
PPI Lung Myeloid Subcluster 9

CASP5
838
PPI Lung Myeloid Subcluster 9

CASP1
834
PPI Lung Myeloid Subcluster 10

IL1A
3552
PPI Lung Myeloid Subcluster 10

IL1R2
7850
PPI Lung Myeloid Subcluster 10

IL1RN
3557
PPI Lung Myeloid Subcluster 10

ADCYAP1
116
PPI Lung Myeloid Subcluster 3

BST1
683
PPI Lung Myeloid Subcluster 3

CD38
952
PPI Lung Myeloid Subcluster 3

CD53
963
PPI Lung Myeloid Subcluster 3

CEACAM1
634
PPI Lung Myeloid Subcluster 3

CERS6
253782
PPI Lung Myeloid Subcluster 3

CLEC12A
160364
PPI Lung Myeloid Subcluster 3

CLEC12B
387837
PPI Lung Myeloid Subcluster 3

CLEC4D
338339
PPI Lung Myeloid Subcluster 3

CLEC4E
26253
PPI Lung Myeloid Subcluster 3

CYBB
1536
PPI Lung Myeloid Subcluster 3

CYSTM1
84418
PPI Lung Myeloid Subcluster 3

FCER1G
2207
PPI Lung Myeloid Subcluster 3

GPR84
53831
PPI Lung Myeloid Subcluster 3

MGAM
8972
PPI Lung Myeloid Subcluster 3

MS4A3
932
PPI Lung Myeloid Subcluster 3

ALOX5AP
241
PPI Lung Myeloid Subcluster 6

AQP9
366
PPI Lung Myeloid Subcluster 6

ARHGAP9
64333
PPI Lung Myeloid Subcluster 6

C1QB
713
PPI Lung Myeloid Subcluster 6

C2
717
PPI Lung Myeloid Subcluster 6

CAPZA1
829
PPI Lung Myeloid Subcluster 6

CCL18
6362
PPI Lung Myeloid Subcluster 6

CCL8
6355
PPI Lung Myeloid Subcluster 6

CD74
972
PPI Lung Myeloid Subcluster 6

CMTM2
146225
PPI Lung Myeloid Subcluster 6

COL9A2
1298
PPI Lung Myeloid Subcluster 6

CTF1
1489
PPI Lung Myeloid Subcluster 6

EVI2A
2123
PPI Lung Myeloid Subcluster 6

EVI2B
2124
PPI Lung Myeloid Subcluster 6

FCGR2A
2212
PPI Lung Myeloid Subcluster 6

FCN1
2219
PPI Lung Myeloid Subcluster 6

GAPT
202309
PPI Lung Myeloid Subcluster 6

HCST
10870
PPI Lung Myeloid Subcluster 6

IFNL1
282618
PPI Lung Myeloid Subcluster 6

IGLL5
100423062
PPI Lung Myeloid Subcluster 6

IGSF6
10261
PPI Lung Myeloid Subcluster 6

IL2RG
3561
PPI Lung Myeloid Subcluster 6

LILRA1
11024
PPI Lung Myeloid Subcluster 6

LY86
9450
PPI Lung Myeloid Subcluster 6

NCF4
4689
PPI Lung Myeloid Subcluster 6

PIK3AP1
118788
PPI Lung Myeloid Subcluster 6

PLEK
5341
PPI Lung Myeloid Subcluster 6

RAC2
5880
PPI Lung Myeloid Subcluster 6

RNASE2
6036
PPI Lung Myeloid Subcluster 6

S100A12
6283
PPI Lung Myeloid Subcluster 6

S100A8
6279
PPI Lung Myeloid Subcluster 6

S100A9
6280
PPI Lung Myeloid Subcluster 6

SELL
6402
PPI Lung Myeloid Subcluster 6

STX11
8676
PPI Lung Myeloid Subcluster 6

TAGAP
117289
PPI Lung Myeloid Subcluster 6

TFEC
22797
PPI Lung Myeloid Subcluster 6

TLR1
7096
PPI Lung Myeloid Subcluster 6

TMEM176B
28959
PPI Lung Myeloid Subcluster 6

BCL2A1
597
PPI Lung Myeloid Subcluster 4

C1QC
714
PPI Lung Myeloid Subcluster 4

CARD16
114769
PPI Lung Myeloid Subcluster 4

CLEC4A
50856
PPI Lung Myeloid Subcluster 4

CSF2RB
1439
PPI Lung Myeloid Subcluster 4

FGL2
10875
PPI Lung Myeloid Subcluster 4

IL1B
3553
PPI Lung Myeloid Subcluster 4

RGS18
64407
PPI Lung Myeloid Subcluster 4

TLR7
51284
PPI Lung Myeloid Subcluster 4

ARRB2
409
PPI Lung Myeloid Subcluster 7

C6
729
PPI Lung Myeloid Subcluster 7

C8A
731
PPI Lung Myeloid Subcluster 7

CDH2
1000
PPI Lung Myeloid Subcluster 7

EGF
1950
PPI Lung Myeloid Subcluster 7

F5
2153
PPI Lung Myeloid Subcluster 7

FGG
2266
PPI Lung Myeloid Subcluster 7

FGL1
2267
PPI Lung Myeloid Subcluster 7

IGFBP1
3484
PPI Lung Myeloid Subcluster 7

LMAN1L
79748
PPI Lung Myeloid Subcluster 7

LY96
23643
PPI Lung Myeloid Subcluster 7

LYN
4067
PPI Lung Myeloid Subcluster 7

OR13G1
441933
PPI Lung Myeloid Subcluster 7

OR2AT4
341152
PPI Lung Myeloid Subcluster 7

OR2C1
4993
PPI Lung Myeloid Subcluster 7

PCSK9
255738
PPI Lung Myeloid Subcluster 7

RBP4
5950
PPI Lung Myeloid Subcluster 7

SERPINA1
5265
PPI Lung Myeloid Subcluster 7

SERPINE2
5270
PPI Lung Myeloid Subcluster 7

BDKRB2
624
PPI BAL Myeloid Subcluster 2

C3
718
PPI BAL Myeloid Subcluster 2

C3AR1
719
PPI BAL Myeloid Subcluster 2

CCL20
6364
PPI BAL Myeloid Subcluster 2

CCL4
6351
PPI BAL Myeloid Subcluster 2

CCL7
6354
PPI BAL Myeloid Subcluster 2

CCR1
1230
PPI BAL Myeloid Subcluster 2

CCR5
1234
PPI BAL Myeloid Subcluster 2

CXCL1
2919
PPI BAL Myeloid Subcluster 2

CXCL10
3627
PPI BAL Myeloid Subcluster 2

CXCL11
6373
PPI BAL Myeloid Subcluster 2

CXCL12
6387
PPI BAL Myeloid Subcluster 2

CXCL16
58191
PPI BAL Myeloid Subcluster 2

CXCL2
2920
PPI BAL Myeloid Subcluster 2

CXCL3
2921
PPI BAL Myeloid Subcluster 2

CXCL6
6372
PPI BAL Myeloid Subcluster 2

CXCL9
4283
PPI BAL Myeloid Subcluster 2

FPR3
2359
PPI BAL Myeloid Subcluster 2

GNAI1
2770
PPI BAL Myeloid Subcluster 2

GNB4
59345
PPI BAL Myeloid Subcluster 2

GNG12
55970
PPI BAL Myeloid Subcluster 2

GNG5
2787
PPI BAL Myeloid Subcluster 2

GNGT2
2793
PPI BAL Myeloid Subcluster 2

HCAR2
338442
PPI BAL Myeloid Subcluster 2

KCNJ10
3766
PPI BAL Myeloid Subcluster 2

KCNJ16
3773
PPI BAL Myeloid Subcluster 2

KCNJ5
3762
PPI BAL Myeloid Subcluster 2

LPAR1
1902
PPI BAL Myeloid Subcluster 2

LPAR3
23566
PPI BAL Myeloid Subcluster 2

NPW
283869
PPI BAL Myeloid Subcluster 2

PAQR5
54852
PPI BAL Myeloid Subcluster 2

PTGER3
5733
PPI BAL Myeloid Subcluster 2

RGS22
26166
PPI BAL Myeloid Subcluster 2

SAA1
6288
PPI BAL Myeloid Subcluster 2

SSTR2
6752
PPI BAL Myeloid Subcluster 2

SUCNR1
56670
PPI BAL Myeloid Subcluster 2

TAS2R13
50838
PPI BAL Myeloid Subcluster 2

ABI1
10006
PPI BAL Myeloid Subcluster 7

C1QA
712
PPI BAL Myeloid Subcluster 7

C1QB
713
PPI BAL Myeloid Subcluster 7

C1QC
714
PPI BAL Myeloid Subcluster 7

C2
717
PPI BAL Myeloid Subcluster 7

CFH
3075
PPI BAL Myeloid Subcluster 7

CRK
1398
PPI BAL Myeloid Subcluster 7

DOCK1
1793
PPI BAL Myeloid Subcluster 7

FCGR2A
2212
PPI BAL Myeloid Subcluster 7

FCGR3A
2214
PPI BAL Myeloid Subcluster 7

GK
2710
PPI BAL Myeloid Subcluster 7

IGSF6
10261
PPI BAL Myeloid Subcluster 7

KNDC1
85442
PPI BAL Myeloid Subcluster 7

LILRB4
11006
PPI BAL Myeloid Subcluster 7

MARCO
8685
PPI BAL Myeloid Subcluster 7

MRC1
4360
PPI BAL Myeloid Subcluster 7

NCKAP1
10787
PPI BAL Myeloid Subcluster 7

PLA2G7
7941
PPI BAL Myeloid Subcluster 7

ANXA2
302
PPI BAL Myeloid Subcluster 3

APOE
348
PPI BAL Myeloid Subcluster 3

C6
729
PPI BAL Myeloid Subcluster 3

C8B
732
PPI BAL Myeloid Subcluster 3

CD44
960
PPI BAL Myeloid Subcluster 3

CP
1356
PPI BAL Myeloid Subcluster 3

CREG1
8804
PPI BAL Myeloid Subcluster 3

CTSC
1075
PPI BAL Myeloid Subcluster 3

DCP1B
196513
PPI BAL Myeloid Subcluster 3

FABP5
2171
PPI BAL Myeloid Subcluster 3

FCGR1A
2209
PPI BAL Myeloid Subcluster 3

FCGR1B
2210
PPI BAL Myeloid Subcluster 3

FGFR2
2263
PPI BAL Myeloid Subcluster 3

FN1
2335
PPI BAL Myeloid Subcluster 3

FRK
2444
PPI BAL Myeloid Subcluster 3

FTL
2512
PPI BAL Myeloid Subcluster 3

FUCA1
2517
PPI BAL Myeloid Subcluster 3

GBP1
2633
PPI BAL Myeloid Subcluster 3

GBP6
163351
PPI BAL Myeloid Subcluster 3

GM2A
2760
PPI BAL Myeloid Subcluster 3

GOLM1
51280
PPI BAL Myeloid Subcluster 3

HLA-DPA1
3113
PPI BAL Myeloid Subcluster 3

HLA-DQA1
3117
PPI BAL Myeloid Subcluster 3

HLA-DQA2
3118
PPI BAL Myeloid Subcluster 3

HLA-DQB2
3120
PPI BAL Myeloid Subcluster 3

IFI6
2537
PPI BAL Myeloid Subcluster 3

IFIH1
64135
PPI BAL Myeloid Subcluster 3

IFIT3
3437
PPI BAL Myeloid Subcluster 3

IFIT5
24138
PPI BAL Myeloid Subcluster 3

IFITM3
10410
PPI BAL Myeloid Subcluster 3

IGFBP3
3486
PPI BAL Myeloid Subcluster 3

IGFBP5
3488
PPI BAL Myeloid Subcluster 3

IL17RD
54756
PPI BAL Myeloid Subcluster 3

IRF2
3660
PPI BAL Myeloid Subcluster 3

IRF6
3664
PPI BAL Myeloid Subcluster 3

ISG15
9636
PPI BAL Myeloid Subcluster 3

LAMB1
3912
PPI BAL Myeloid Subcluster 3

LGMN
5641
PPI BAL Myeloid Subcluster 3

MGAT4A
11320
PPI BAL Myeloid Subcluster 3

MID1
4281
PPI BAL Myeloid Subcluster 3

MMP1
4312
PPI BAL Myeloid Subcluster 3

MMP10
4319
PPI BAL Myeloid Subcluster 3

MMP7
4316
PPI BAL Myeloid Subcluster 3

MSLN
10232
PPI BAL Myeloid Subcluster 3

MT2A
4502
PPI BAL Myeloid Subcluster 3

NKAP
79576
PPI BAL Myeloid Subcluster 3

OAS1
4938
PPI BAL Myeloid Subcluster 3

OAS2
4939
PPI BAL Myeloid Subcluster 3

OASL
8638
PPI BAL Myeloid Subcluster 3

OSBPL1A
114876
PPI BAL Myeloid Subcluster 3

PDCD1LG2
80380
PPI BAL Myeloid Subcluster 3

PRSS23
11098
PPI BAL Myeloid Subcluster 3

PTRH2
51651
PPI BAL Myeloid Subcluster 3

PYCARD
29108
PPI BAL Myeloid Subcluster 3

S100A2
6273
PPI BAL Myeloid Subcluster 3

S100A7
6278
PPI BAL Myeloid Subcluster 3

SDC2
6383
PPI BAL Myeloid Subcluster 3

SDCBP
6386
PPI BAL Myeloid Subcluster 3

SERPINB3
6317
PPI BAL Myeloid Subcluster 3

SERPINB4
6318
PPI BAL Myeloid Subcluster 3

SP110
3431
PPI BAL Myeloid Subcluster 3

SPARCL1
8404
PPI BAL Myeloid Subcluster 3

SPP1
6696
PPI BAL Myeloid Subcluster 3

TNC
3371
PPI BAL Myeloid Subcluster 3

TRIM14
9830
PPI BAL Myeloid Subcluster 3

TRIM2
23321
PPI BAL Myeloid Subcluster 3

ACACB
32
PPI BAL Myeloid Subcluster 5

ACADM
34
PPI BAL Myeloid Subcluster 5

APOC1
341
PPI BAL Myeloid Subcluster 5

BDP1
55814
PPI BAL Myeloid Subcluster 5

BNIP3
664
PPI BAL Myeloid Subcluster 5

BRD8
10902
PPI BAL Myeloid Subcluster 5

CCL3
6348
PPI BAL Myeloid Subcluster 5

CEBPB
1051
PPI BAL Myeloid Subcluster 5

CEP350
9857
PPI BAL Myeloid Subcluster 5

CNOT1
23019
PPI BAL Myeloid Subcluster 5

DEPTOR
64798
PPI BAL Myeloid Subcluster 5

DHX32
55760
PPI BAL Myeloid Subcluster 5

EIF4EBP1
1978
PPI BAL Myeloid Subcluster 5

FABP4
2167
PPI BAL Myeloid Subcluster 5

FABP6
2172
PPI BAL Myeloid Subcluster 5

FAM120B
84498
PPI BAL Myeloid Subcluster 5

FNIP1
96459
PPI BAL Myeloid Subcluster 5

FNIP2
57600
PPI BAL Myeloid Subcluster 5

GPN3
51184
PPI BAL Myeloid Subcluster 5

GRHL1
29841
PPI BAL Myeloid Subcluster 5

GTF3A
2971
PPI BAL Myeloid Subcluster 5

GTF3C6
112495
PPI BAL Myeloid Subcluster 5

HMGCS2
3158
PPI BAL Myeloid Subcluster 5

ITPA
3704
PPI BAL Myeloid Subcluster 5

KLF5
688
PPI BAL Myeloid Subcluster 5

LAMTOR5
10542
PPI BAL Myeloid Subcluster 5

LEP
3952
PPI BAL Myeloid Subcluster 5

LPL
4023
PPI BAL Myeloid Subcluster 5

MCTS1
28985
PPI BAL Myeloid Subcluster 5

MED11
400569
PPI BAL Myeloid Subcluster 5

MED19
219541
PPI BAL Myeloid Subcluster 5

MED21
9412
PPI BAL Myeloid Subcluster 5

MED7
9443
PPI BAL Myeloid Subcluster 5

MED8
112950
PPI BAL Myeloid Subcluster 5

NCOA2
10499
PPI BAL Myeloid Subcluster 5

NFIA
4774
PPI BAL Myeloid Subcluster 5

NFIB
4781
PPI BAL Myeloid Subcluster 5

NFIC
4782
PPI BAL Myeloid Subcluster 5

NR2F2
7026
PPI BAL Myeloid Subcluster 5

PDE9A
5152
PPI BAL Myeloid Subcluster 5

POLR3B
55703
PPI BAL Myeloid Subcluster 5

POLR3C
10623
PPI BAL Myeloid Subcluster 5

POLR3K
51728
PPI BAL Myeloid Subcluster 5

PPARG
5468
PPI BAL Myeloid Subcluster 5

PPARGC1A
10891
PPI BAL Myeloid Subcluster 5

PRKAA1
5562
PPI BAL Myeloid Subcluster 5

PRKAA2
5563
PPI BAL Myeloid Subcluster 5

PRKAG1
5571
PPI BAL Myeloid Subcluster 5

PRKAG3
53632
PPI BAL Myeloid Subcluster 5

RGL1
23179
PPI BAL Myeloid Subcluster 5

RHEB
6009
PPI BAL Myeloid Subcluster 5

RRAGA
10670
PPI BAL Myeloid Subcluster 5

RRAGB
10325
PPI BAL Myeloid Subcluster 5

RRAGC
64121
PPI BAL Myeloid Subcluster 5

AIM2
9447
PPI BAL Myeloid Subcluster 9

CASP4
837
PPI BAL Myeloid Subcluster 9

CASP5
838
PPI BAL Myeloid Subcluster 9

IFI16
3428
PPI BAL Myeloid Subcluster 9

IL18
3606
PPI BAL Myeloid Subcluster 9

NLRC4
58484
PPI BAL Myeloid Subcluster 9

Co-expressed Myeloid Subpopulations

GeneSymbol
EntrezID

CoV-2 PBMC Myeloid A1

ADAMDEC1
27299

ADGRE2
30817

AIF1
199

AOAH
313

APOBEC3B
9582

APOBR
55911

APOC1
341

BST1
683

C1QA
712

C1QB
713

C1QC
714

C1RL
51279

C2
717

C4A
720

C4B
721

C4BPA
722

C5
727

C6
729

CCL18
6362

CCL2
6347

CCL7
6354

CCL8
6355

CD101
9398

CD14
929

CD163
9332

CD209
30835

CD300C
10871

CD300E
342510

CD300LF
146722

CD33
945

CD68
968

CD80
941

CFD
1675

CFP
5199

CLEC10A
10462

CLEC12A
160364

CLEC12B
387837

CLEC16A
23274

CLEC4A
50856

CLEC4D
338339

CLEC4E
26253

CLEC5A
23601

CLEC6A
93978

CLEC7A
64581

CSF1R
1436

CSF2RA
1438

CSF2RB
1439

CSF3R
1441

CST3
1471

CXCL10
3627

CXCL11
6373

CXCL2
2920

CXCL9
4283

CYBA
1535

CYBB
1536

FCER1G
2207

FCGR1A
2209

FCGR1B
2210

FCGR2A
2212

FCGR2B
2213

FCGR2C
9103

FGR
2268

FLT3
2322

FOLR2
2350

FUT4
2526

GRN
2896

HVCN1
84329

IFI30
10437

IGSF6
10261

IL10RA
3587

IL18
3606

IL1A
3552

IL1RAP
3556

IL1RN
3557

ITGAX
3687

LGALS12
85329

LGALS9
3965

LILRA1
11024

LILRA2
11027

LILRA5
353514

LILRA6
79168

LILRB1
10859

LILRB2
10288

LILRB3
11025

LILRB4
11006

LILRB5
10990

LMNB1
4001

LY86
9450

LYVE1
10894

LYZ
4069

MARCO
8685

MEFV
4210

MERTK
10461

MFGE8
4240

MNDA
4332

MPEG1
219972

MRC1
4360

MS4A4A
51338

MS4A6A
64231

MSR1
4481

NLRP12
91662

NLRP3
114548

NOD2
64127

NTSR1
4923

OSCAR
126014

OTOF
9381

PECAM1
5175

PILRA
29992

PLEK
5341

PRAM1
84106

RNASE3
6037

RNASE6
6039

RNASE7
84659

S100A8
6279

S100A9
6280

SCARB1
949

SECTM1
6398

SEMA4A
64218

SERPINB9
5272

SERPING1
710

SIGLEC1
6614

SIGLEC10
89790

SIGLEC5
8778

SIGLEC7
27036

SKAP2
8935

SLC11A1
6556

SLITRK4
139065

SPI1
6688

TGM2
7052

THBD
7056

TLR2
7097

TLR8
51311

TNF
7124

TNFAIP8L2
79626

TNFRSF1B
7133

TNFSF13B
10673

TREM1
54210

TREML4
285852

TYROBP
7305

UNC93B1
81622

VENTX
27287

VSIG4
11326

VSTM1
284415

CoV-2 Lung Myeloid A2

ADAMDEC1
27299

ADGRE1
2015

ADGRE2
30817

AIF1
199

APOBEC3B
9582

APOBEC3G
60489

APOBR
55911

APOC1
341

BST1
683

C1QA
712

C1QB
713

C1QC
714

C2
717

C4BPA
722

C4BPB
725

C6
729

C8A
731

CCL18
6362

CCL2
6347

CCL22
6367

CCL7
6354

CCL8
6355

CD14
929

CD300E
342510

CD33
945

CD80
941

CFD
1675

CFP
5199

CHI3L1
1116

CHIT1
1118

CLEC12A
160364

CLEC12B
387837

CLEC1A
51267

CLEC2B
9976

CLEC4A
50856

CLEC4D
338339

CLEC4E
26253

CLEC7A
64581

CSF2
1437

CSF2RB
1439

CSF3R
1441

CST3
1471

CXCL1
2919

CXCL10
3627

CXCL11
6373

CXCL13
10563

CXCL8
3576

CXCR2
3579

CYBA
1535

CYBB
1536

FCER1G
2207

FCGR1A
2209

FCGR2A
2212

FCGR2B
2213

FCGR2C
9103

FCGR3A
2214

FCGR3B
2215

FFAR2
2867

FGR
2268

FOLR2
2350

GRN
2896

IFNL1
282618

IGSF6
10261

IL12B
3593

IL18
3606

IL18RAP
8807

IL1A
3552

IL1B
3553

IL1RAP
3556

IL1RN
3557

IL20
50604

IL23A
51561

IL27
246778

ITGAX
3687

LAMP3
27074

LGALS9
3965

LGALS9C
654346

LILRA5
353514

LILRA6
79168

LILRB1
10859

LILRB2
10288

LILRB3
11025

LILRB4
11006

LILRB5
10990

LMNB1
4001

LY86
9450

LYZ
4069

MNDA
4332

MPEG1
219972

MS4A4A
51338

MS4A6A
64231

MSR1
4481

NLRP3
114548

OLR1
4973

OTOF
9381

PDCD1LG2
80380

PILRA
29992

PLEK
5341

S100A8
6279

S100A9
6280

S1PR5
53637

SECTM1
6398

SEMA4A
64218

SERPINB9
5272

SERPING1
710

SIGLEC14
1E+08

SIGLEC5
8778

SLPI
6590

SPI1
6688

TLR2
7097

TNF
7124

TNFSF13B
10673

TNFSF14
8740

TNIP3
79931

TREM1
54210

TREML4
285852

TYROBP
7305

UNC93B1
81622

VSIG4
11326

CoV-2 BAL Lung Myeloid A3

GeneSymbol
EntrezID

ACE
1636

ADAMDEC1
27299

ADGRE3
84658

AIF1
199

APOBEC3G
60489

APOC1
341

C1QA
712

C1QB
713

C1QC
714

C1R
715

C2
717

C4BPA
722

C5
727

C6
729

CCL18
6362

CCL2
6347

CCL28
56477

CCL7
6354

CCL8
6355

CD163
9332

CD300LF
146722

CD5L
922

CD68
968

CD80
941

CHI3L1
1116

CLEC2B
9976

CLEC4E
26253

CLEC5A
23601

CLEC6A
93978

CXCL1
2919

CXCL10
3627

CXCL11
6373

CXCL2
2920

CXCL8
3576

CXCL9
4283

CXCR2
3579

FCER1G
2207

FCGR1A
2209

FCGR1B
2210

FCGR2A
2212

FCGR2C
9103

FCGR3A
2214

FCGR3B
2215

FOLR2
2350

IGSF6
10261

IK
3550

IL18
3606

IL1A
3552

IL1B
3553

IL1RN
3557

IL23A
51561

LAMP3
27074

LGALS9B
284194

LGALS9C
654346

LILRB4
11006

LILRB5
10990

LY86
9450

LYVE1
10894

MARCO
8685

MERTK
10461

MNDA
4332

MRC1
4360

MS4A4A
51338

MSR1
4481

OLR1
4973

OTOF
9381

PDCD1LG2
80380

PILRA
29992

RNASE7
84659

SCARB1
949

SERPING1
710

SIGLEC1
6614

SIGLEC14
100049587

SIGLEC5
8778

SIGLEC7
27036

SKAP2
8935

SLAMF8
56833

SLPI
6590

STAP2
55620

TGM2
7052

TLR8
51311

TNF
7124

TNFAIP8L2
79626

TNFSF13B
10673

TNIP3
79931

TYROBP
7305

VSIG4
11326

CoV-2 PBMC Myeloid B1

GeneSymbol
EntrezID

ACE
1636

ADAM8
101

ADGRE1
2015

ADGRE3
84658

APOBEC3G
60489

C1R
715

CCL28
56477

CD5L
922

CHI3L1
1116

CHIT1
1118

CLEC2B
9976

CXCL1
2919

CXCL8
3576

CXCR2
3579

FCER1A
2205

FCGR3A
2214

FCGR3B
2215

FFAR2
2867

IK
3550

IL18RAP
8807

IL1B
3553

IL23A
51561

LAMP3
27074

LGALS9B
284194

LGALS9C
654346

OLR1
4973

PDCD1LG2
80380

PYHIN1
149628

S1PR5
53637

SIGLEC14
1E+08

SLAMF8
56833

SLPI
6590

STAP2
55620

TNFSF14
8740

TNIP3
79931

TREML2
79865

CoV-2 PBMC Lung B2

GeneSymbol
EntrezID

ACE
1636

ADAM8
101

AOAH
313

ART4
420

BMX
660

C1R
715

C1RL
51279

C4A
720

C4B
721

CD163
9332

CD209
30835

CD300C
10871

CD300LF
146722

CD5L
922

CFB
629

CLEC10A
10462

CLEC16A
23274

CLEC5A
23601

CSF1R
1436

CSF2RA
1438

CXCL2
2920

CXCL9
4283

FCER1A
2205

FCGR1B
2210

FUT4
2526

HVCN1
84329

IK
3550

IL10RA
3587

IL12A
3592

IL31RA
133396

LGALS9B
284194

LILRA1
11024

LILRA2
11027

LYVE1
10894

MARCO
8685

MEFV
4210

MERTK
10461

MFGE8
4240

MRC1
4360

NLRP12
91662

NOD2
64127

OSCAR
126014

PECAM1
5175

PLA2G5
5322

PRAM1
84106

PYHIN1
149628

RNASE6
6039

SCARB1
949

SIGLEC1
6614

SKAP2
8935

SLC11A1
6556

STAP2
55620

TEK
7010

TGM2
7052

THBD
7056

TLR8
51311

TNFAIP8L2
79626

TNFRSF1B
7133

CoV-2 BAL Myeloid B3

GeneSymbol
EntrezID

ADAM8
101

ADGRE1
2015

ADGRE2
30817

AOAH
313

APOBEC3B
9582

APOBR
55911

BST1
683

C1RL
51279

C4A
720

C4B
721

CD101
9398

CD14
929

CD209
30835

CD300C
10871

CD300E
342510

CD33
945

CFD
1675

CFP
5199

CHIT1
1118

CLEC10A
10462

CLEC12A
160364

CLEC12B
387837

CLEC16A
23274

CLEC4A
50856

CLEC4D
338339

CLEC7A
64581

CSF1R
1436

CSF2RA
1438

CSF2RB
1439

CSF3R
1441

CST3
1471

CYBA
1535

CYBB
1536

FCER1A
2205

FCGR2B
2213

FFAR2
2867

FGR
2268

FLT3
2322

FUT4
2526

GRN
2896

HVCN1
84329

IFI30
10437

IL10RA
3587

IL18RAP
8807

IL1RAP
3556

ITGAX
3687

LGALS12
85329

LGALS9
3965

LILRA1
11024

LILRA2
11027

LILRA5
353514

LILRA6
79168

LILRB1
10859

LILRB2
10288

LILRB3
11025

LMNB1
4001

LYZ
4069

MEFV
4210

MFGE8
4240

MPEG1
219972

MS4A6A
64231

NLRP12
91662

NLRP3
114548

NOD2
64127

NTSR1
4923

OSCAR
126014

PECAM1
5175

PLEK
5341

PRAM1
84106

PYHIN1
149628

RNASE3
6037

RNASE6
6039

S100A8
6279

S100A9
6280

S1PR5
53637

SECTM1
6398

SEMA4A
64218

SERPINB9
5272

SIGLEC10
89790

SLC11A1
6556

SLITRK4
139065

SPI1
6688

THBD
7056

TLR2
7097

TNFRSF1B
7133

TNFSF14
8740

TREM1
54210

TREML2
79865

TREML4
285852

UNC93B1
81622

VENTX
27287

VSTM1
284415

Co-Expressed Myeloid Subpopulations Venn Diagrams

PBMC/Lung/BAL

GeneSymbol
EntrezID

ADAMDEC1
27299

AIF1
199

APOC1
341

C1QA
712

C1QB
713

C1QC
714

C2
717

C4BPA
722

C6
729

CCL18
6362

CCL2
6347

CCL7
6354

CCL8
6355

CD80
941

CLEC4E
26253

CXCL10
3627

CXCL11
6373

FCER1G
2207

FCGR1A
2209

FCGR2A
2212

FCGR2C
9103

FOLR2
2350

IGSF6
10261

IL18
3606

IL1A
3552

IL1RN
3557

LILRB4
11006

LILRB5
10990

LY86
9450

MNDA
4332

MS4A4A
51338

MSR1
4481

OTOF
9381

PILRA
29992

SERPING1
710

SIGLEC5
8778

TNF
7124

TNFSF13B
10673

TYROBP
7305

VSIG4
11326

PBMC/Lung

GeneSymbol
EntrezID

ADGRE2
30817

APOBEC3B
9582

APOBR
55911

BST1
683

CD14
929

CD300E
342510

CD33
945

CFD
1675

CFP
5199

CLEC12A
160364

CLEC12B
387837

CLEC4A
50856

CLEC4D
338339

CLEC7A
64581

CSF2RB
1439

CSF3R
1441

CST3
1471

CYBA
1535

CYBB
1536

FCGR2B
2213

FGR
2268

GRN
2896

IL1RAP
3556

ITGAX
3687

LGALS9
3965

LILRA5
353514

LILRA6
79168

LILRB1
10859

LILRB2
10288

LILRB3
11025

LMNB1
4001

LYZ
4069

MPEG1
219972

MS4A6A
64231

NLRP3
114548

PLEK
5341

S100A8
6279

S100A9
6280

SECTM1
6398

SEMA4A
64218

SERPINB9
5272

SPI1
6688

TLR2
7097

TREM1
54210

TREML4
285852

UNC93B1
81622

PBMC/BAL

GeneSymbol
EntrezID

C5
727

CD163
9332

CD300LF
146722

CD68
968

CLEC5A
23601

CLEC6A
93978

CXCL2
2920

CXCL9
4283

FCGR1B
2210

LYVE1
10894

MARCO
8685

MERTK
10461

MRC1
4360

RNASE7
84659

SCARB1
949

SIGLEC1
6614

SIGLEC7
27036

SKAP2
8935

TGM2
7052

TLR8
51311

TNFAIP8L2
79626

LUNG/BAL

GeneSymbol
EntrezID

APOBEC3G
60489

CHI3L1
1116

CLEC2B
9976

CXCL1
2919

CXCL8
3576

CXCR2
3579

FCGR3A
2214

FCGR3B
2215

IL1B
3553

IL23A
51561

LAMP3
27074

LGALS9C
654346

OLR1
4973

PDCD1LG2
80380

SIGLEC14
1E+08

SLPI
6590

TNIP3
79931

PBMC

GeneSymbol
EntrezID

AOAH
313

C1RL
51279

C4A
720

C4B
721

CD101
9398

CD209
30835

CD300C
10871

CLEC10A
10462

CLEC16A
23274

CSF1R
1436

CSF2RA
1438

FLT3
2322

FUT4
2526

HVCN1
84329

IFI30
10437

IL10RA
3587

LGALS12
85329

LILRA1
11024

LILRA2
11027

MEFV
4210

MFGE8
4240

NLRP12
91662

NOD2
64127

NTSR1
4923

OSCAR
126014

PECAM1
5175

PRAM1
84106

RNASE3
6037

RNASE6
6039

SIGLEC10
89790

SLC11A1
6556

SLITRK4
139065

THBD
7056

TNFRSF1B
7133

VENTX
27287

VSTM1
284415

LUNG

GeneSymbol
EntrezID

ADGRE1
2015

C4BPB
725

C8A
731

CCL22
6367

CHIT1
1118

CLEC1A
51267

CSF2
1437

CXCL13
10563

FFAR2
2867

IFNL1
282618

IL12B
3593

IL18RAP
8807

IL20
50604

IL27
246778

S1PR5
53637

TNFSF14
8740

BAL

GeneSymbol
EntrezID

ACE
1636

ADGRE3
84658

C1R
715

CCL28
56477

CD5L
922

IK
3550

LGALS9B
284194

SLAMF8
56833

STAP2
55620

Example 2: Comprehensive Transcriptomic Analysis of COVID-19 Blood, Lung, and Airway

SARS-CoV2 may refer to an uncharacterized coronavirus and causative agent of the COVID-19 pandemic. The host response to SARS-CoV2 has not yet been fully delineated, hampering a precise approach to therapy. To address this, a comprehensive analysis of gene expression data from the blood, lung, and airway of COVID-19 patients was performed. The results obtained indicate that COVID-19 pathogenesis is driven by populations of myeloid-lineage cells with highly inflammatory but distinct transcriptional signatures in each compartment. The relative absence of cytotoxic cells in the lung indicates a model in which delayed clearance of the virus may permit exaggerated myeloid cell activation that contributes to disease pathogenesis by the production of inflammatory mediators. The gene expression profiles may also identify potential therapeutic targets that may be modified with available drugs. The results and data indicate that transcriptomic profiling can provide an understanding of the pathogenesis of COVID-19 in individual patients.

Coronaviruses (CoV) generally refer to a group of enveloped, single, positive-stranded RNA viruses causing mild to severe respiratory illnesses in humans (Refs. 1-3). In the past two decades, three worldwide outbreaks have originated from CoVs capable of infecting the lower respiratory tract, resulting in heightened pathogenicity and high mortality rates. There is currently a global pandemic stemming from a third CoV strain, severe acute respiratory syndrome coronavirus 2 (SARS-CoV2), the causative agent of coronavirus disease 2019 (COVID-19). In the majority of cases, patients exhibit mild symptoms, whereas in more severe cases, patients may develop severe lung injury and death from respiratory failure (Refs. 4-5).

At this time, there is still incomplete information available regarding the host response to SARS-CoV2 infection and the perturbations resulting in a severe outcome. Despite this, clues can be derived from our knowledge of the immune response to infection by other respiratory viruses, including other CoVs. After infection, viruses are typically detected by pattern recognition receptors (PRRs) such as the inflammasome sensor NLRP3, which signal the release of interferons (IFNs) and inflammatory cytokines including the IL-1 family, IL-6, and TNF, that activate a local and systemic response to infection (Refs. 6-7). This involves the recruitment, activation, and differentiation of innate and adaptive immune cells, including neutrophils, inflammatory myeloid cells, CD8 T cells, and natural killer (NK) cells (Ref 8). Resolution of infection may be largely dependent on the cytotoxic activity of CD8 T cells and NK cells, which enable clearance of virus-infected cells (Ref 8). Failure to clear virus-infected cells may facilitate a hyper-inflammatory state termed Macrophage (M1) activation syndrome (MAS) or “cytokine storm”, and ultimately damage to the infected lung (Refs. 9-10).

The recent emergence of SARS-CoV2 and the relative lack of comprehensive knowledge regarding the progression of COVID-19 disease has constrained the ability to develop effective treatments for infected patients. One approach to obtain a more complete understanding of the host response to SARS-CoV2 is to examine gene expression in relevant tissues. A limited number of gene expression profiles may be available from patients with COVID-19 and have yielded some insights into the pathogenic processes triggered by infection with SARS-CoV2 (Refs. 11-13). However, because of the small number of samples and limited analysis, a comprehensive understanding of the biological state of SARS-CoV2-affected tissues may not be available. Recognizing this need, the present disclosure provides an analysis and assessment of available SARS-CoV2 gene expression datasets from blood, lung, and airway using a number of orthogonal bioinformatic tools to provide a more complete view of the nature of the COVID-19 inflammatory response and the potential points of therapeutic intervention.

Gene expression analysis of blood, lung, and airway of COVID-19 patients was performed as follows. To characterize the pathologic response to SARS-CoV2 infection, transcriptomic data was analyzed from peripheral blood mononuclear cells (PBMCs) and postmortem lung tissue of COVID-19 patients and healthy controls as well as bronchoalveolar lavage (BAL) fluid of COVID-19 patients (CRA002390, GSE147507, FIGS. 25A-25D) (Refs. 11-12). First, changes in gene expression were determined in the blood (PBMC-CTL vs PBMC-CoV2) and lung (Lung-CTL vs Lung-CoV2). Because no control BAL fluids were associated with the BAL-CoV2 samples, BAL-CoV2 was compared to PBMC-CoV2 from the same dataset to avoid effects related to batch and methodology. Overall, a set of 4,245 differentially expressed genes (DEGs) in the blood (2,166 up and 2,079 down), 2,220 DEGs in the lung (684 up and 1,536 down), and 8,952 DEGs in the airway (BAL) (4,052 up and 4,900 down) were determined (Table 6).

Conserved and differential enrichment of inflammatory cells and pathways in COVID-19 patients was analyzed as follows. To interrogate pathologic pathways in the 3 compartments, Gene Set Variation Analysis (GSVA) was performed utilizing a number of informative gene modules (Refs. 14-15) (FIG. 17). Numerous innate immune response pathways were increased in all 3 compartments, whereas adaptive immune signatures tended to be decreased in blood and airway, but not lung (Refs. 11-12 and 16). Although heterogeneity was observed in all compartments, closer examination revealed consistent perturbations. In the blood, the classical and lectin-induced complement pathways, as well as the NLRP3 inflammasome, plasma cells (PCs), and monocytes (Mo) were significantly enriched in COVID-19 patients, whereas cytotoxic cells and neutrophils were decreased. In the lung, the NLRP3 inflammasome, Mo and myeloid cells were enriched in COVID-19 patients. In addition, although the general granulocyte signature was not significantly increased, a specific low-density granulocyte (LDG) signature (Ref 17) and gene sets of inflammatory and suppressive neutrophils derived from COVID-19 blood were enriched in the lung (Refs. 18-19). In the airway, the classical and alternative complement pathways were enriched and T cells and cytotoxic cells were decreased.

Although there is conflicting data on the presence of an IFN gene signature (IGS) and whether SARS-CoV2 infection induces a robust IFN response (Refs. 12-13 and 20), increased expression was observed of Type I IFN genes (IFNA4, IFNA6, IFNA10), and significant enrichment was observed of the common Type I and Type II IGS, including enrichment of IFNA2, IFNB1 and IFNG gene signatures specifically in the lung tissue (FIGS. 18A-18B). Furthermore, increased expression was detected of genes found to be important for the anti-viral innate immune response (IFIH1, DDX58, EIF2AK2, OAS2), and decreased expression was detected of negative regulators of this response (IRF2BP1, SKIV2L) in both the lung and airway compartments (FIG. 18C) (Ref 21). Interestingly, expression of MAVS, a signaling adaptor for RNA virus sensors, was observed to be decreased in the airway, which is consistent with the reported effect of SARS-CoV2 and may reflect a mechanism of viral immune evasion (Refs. 22-23).

Increased expression of inflammatory mediators in the lungs of COVID-19 patients was analyzed as follows. To examine the nature of the inflammatory response in the tissue compartments in greater detail, specific DEGs of interest (FIG. 19, sections a and b) were examined. In the blood, increased expression was observed of the inflammatory chemokine CXCL10, which is an IFNG response gene and involved in the activation and chemotaxis of peripheral immune cells, (Ref 24), the chemokine receptor CCR2, which may be critical for immune cell recruitment in response to respiratory viral infection (Ref 25), as well as the inflammatory IL-1 family member, IL18. Expression of a number of chemokines, including ligands for CCR2, were significantly increased in both the lung tissue and airway of COVID-19 patients, including CCL2, CCL3L1, CCL7, CCL8, and CXCL10. Elevated pro-inflammatory IL-1 family members, ILIA and IL1B, were also observed in these 2 compartments. Furthermore, lung tissue exhibited enrichment of the IL-1 cytokine gene signature, whereas the airway exhibited additional expression of IL18, IL33, IL36B, and IL36G.

It was observed that non-hematopoietic cells in the BAL fluid may be indicative of viral-induced damage, as follows. To determine whether viral infection resulted in modification of resident tissue populations, GSVA was performed with various non-hematopoietic cell gene signatures (FIG. 19C). It was observed that signatures of various lung tissue cells but not endothelial cells were enriched in the airway, but not the lung of COVID-19 subjects. Additionally, increased expression was detected of the viral entry genes ACE2 and TMPRSS2, which are typically expressed on lung epithelium (Ref. 26) (FIG. 19D).

It was observed that protein-protein interactions identify myeloid subsets in COVID-19 patients, as follows. An unbiased, protein-protein interaction (PPI)-based clustering approach was utilized to assess the inflammatory cell types within each tissue compartment. PPI networks predicted from DEGs were simplified into metastructures defined by the number of genes in each cluster, the number of significant intra-cluster connections, and the number of associations connecting members of different clusters to each other (FIG. 20A-20C). Overall, upregulated PPI networks identified numerous specific cell types and functions. In the blood, cluster 8 was dominated by a Mo population expressing C2, C5, CXCL10, CCR2, and multiple IFN-stimulated genes, whereas cluster 3 contained hallmarks of alternatively activated (M2) MΦs and/or myeloid-derived suppressor cells (MDSCs), including CD33, CD36, CD93, and ITGAM (FIG. 20A). Smaller immune clusters were indicative of functions, including inflammasome activation, damage-associated molecular pattern (DAMP) activity, the classical complement cascade and the response to Type II IFNs. Myeloid heterogeneity in the blood was also reflected by the presence of multiple metabolic pathways, such as enhanced oxidative phosphorylation (OXPHOS) in cluster 1 linked to M2-like MΦs in cluster 3 (mean interaction score of 0.875), and glycolysis in clusters 7 and 13 connected to activated Mo in cluster 8 (interaction scores of 0.86 and 0.82, respectively). Consistent with our GSVA results, blood exhibited profoundly decreased T cells determined by the downregulation of T cell activation markers CD28, LCK and ITK (FIG. 17, section a).

In addition to the various Mo/myeloid populations, lung tissue was infiltrated by LDGs, granulocytes, T cells, and B cells. Metabolic function in the lung was varied, with Mo-enriched clusters (1 and 7) linked to glycolysis in cluster 18 (interaction scores of 0.74 and 0.87, respectively) potentially reflecting cellular activation, whereas OXPHOS was predominantly downregulated along with other nuclear processes (transcription and mRNA processing) (FIG. 20B; FIG. 17, section b). The airway was enriched in inflammatory Mo, mitochondrial function and transcription. Multifunctional cluster 4 was dominated by numerous chemokine and cytokine receptor-ligand pairs, whereas smaller immune clusters were enriched in classical complement activation, IFNG and IL-1 responses. (FIG. 20C). Consistent with tissue damage, numerous small clusters were observed in the airway, reflecting the presence of non-hematopoietic cells, including those containing multiple intermediate filament keratin genes, cell-cell adhesion claudin genes and surfactant genes. Notably, non-hematopoietic cell signatures in the airway were similar in content to those derived from in vitro SARS-CoV-2-infected primary lung epithelial cell lines (NHBE) (Ref. 12) (FIG. 17, section d).

Given the large number of clusters including Mo/myeloid/MΦ, next these clusters were examined in greater detail by altering the stringency of PPI clustering to further characterize unique myeloid lineage cells within each tissue compartment (FIG. 20D-20F). Myeloid lineage-specific clusters were then compared to pre-determined gene signatures, including populations G1-G4 reported in BAL of COVID-19 patients (Ref. 27) (FIG. 18A). In the blood, gene modules representative of common myeloid function (chemotaxis, proteolysis, etc.), as well as two independent Mo/myeloid subpopulations (FIG. 20D), were detected. Cluster 6 contained numerous markers highly reminiscent of classically activated blood Mo and exhibited significant overlap with the inflammatory G1 population, whereas cluster 1 was similar to IFN-activated MΦs, CX3CR1+ synovial lining MΦs (from arthritic mice) and alveolar MΦs (AM) (FIG. 18A).

In the lung (FIG. 20E), clusters 2, 3, and 6 overlapped with the G1 inflammatory Mo population and expressed a number of chemotaxis genes. A second population characteristic of AMs was also evident in the lung, defined by CSF2RB, the receptor for GM-CSF, a cytokine that regulates AM differentiation (Refs. 8 and 28-29). Further characterization of this population indicated significant expression of the coagulation system genes F5, FGG, FGL1, SERPINA, and SERPINE2. Similarly, re-clustering of Mo/MΦs/myeloid clusters from the airway revealed a population with hallmarks of inflammatory/M1 MΦ (MARCO and multiple members of the complement cascade; cluster 7), and a second population of AMs (FIG. 20F) demonstrating significant overlap with the G3 and G4 populations (FIG. 18A) (Ref. 27).

Characterization of myeloid populations in COVID-19 patients was performed as follows. The overlap between characterized BAL-defined gene signatures from COVID-19 patients (Ref. 27) and tissue-defined PPI clusters motivated an evaluation of these populations in greater detail by GSVA. Consistent with PPI clusters, the inflammatory-MΦ G1 population was increased in the blood (FIG. 18B). The G1 and G1 & G2 populations were increased in the lung, consistent with the expression of IFN and pro-inflammatory cytokines (FIG. 18C). In the airway, the G2, G3, and G4 populations were significantly enriched indicating the presence of both pro-inflammatory MΦs and AMs (FIGS. 18A-18C). As a whole, it was found that gene signatures of defined Mo/MΦ populations in COVID-19 BAL were dispersed among the blood, lung, and airway compartment.

It was observed that co-expression further delineates Mo/MΦ gene expression profiles of COVID-19 patients, as follows. Next, the biology of the populations of Mo/MΦ in the tissue compartments were examined in greater detail. A set of 196 co-expressed Mo/myeloid genes was derived and used (FIG. 19, Tables 7A-7C) to probe heterogeneity in each tissue compartment (FIG. 21A). Notably, co-expression of 40 core genes was observed between all compartments, which included complement, chemokine, and cytokine genes (FIG. 21B). In addition, there were 86 shared co-expressed genes in lung and blood, 57 in the lung and airway, and 61 in the airway and blood (FIG. 21B). To directly compare levels of these 196 co-expressed myeloid genes in each compartment, gene expression was normalized in each sample using 3 genes included in the core 40 genes, (FCGR1A, FCGR2A, FCGR2C) (FIG. 21C). Although many genes were not significantly different between compartments, numerous chemokines and cell surface markers (CCL2, CCL7, CCL8, CXCL10, CLEC4E, FCER1G) and inflammatory cytokines (IL1A and TNF) were enriched in the lung compared to the blood and airway. Furthermore, the complement genes C1QB, C1QC, and C2 were increased in the lung compared to the blood, but not changed between the lung and the airway. Altogether, these normalized gene expression results indicated that expression of inflammatory mediators was increased in SARS-CoV2-infected lung over the other compartments and in the airway compared to the blood.

To determine the function and nature of these myeloid populations, they were compared to other myeloid signatures (FIG. 21D) (Refs. 27 and 30-33). The population increased in the blood (A1) was predominantly characterized by features of AMs, M1 and M2 MΦs, pro-inflammatory MΦs with potential to infiltrate tissue, and the inflammatory MΦ G1 population. The A1 population also exhibited features of inflamed murine residential, interstitial MΦs. The myeloid cell population increased in COVID lung (A2) was most similar to pro-fibrotic AMs, M1 MΦs, M2 MΦs, blood-derived infiltrating MΦs, and the inflammatory Mo G1 population. A2 was also marked by additional AM-specific genes, contributing to the observed overlap with the other two compartments. However, overlap between A2 and the G4 AM signature was relatively decreased, suggesting that the lung AMs are more similar to those found in pulmonary fibrosis (Ref 30). Finally, the population increased in the airway (A3) similarly exhibited characteristics of AMs, M1 and M2 MΦs, and pro-inflammatory MΦs that have infiltrated into the tissue compartment (FIG. 21D). Of note, the airway A3 population was not similar to the BAL-derived inflammatory MΦ G1 population (Ref. 27).

Also, the overlap between the Mo/MΦ A1-A3 gene clusters and those identified using PPI clustering (FIGS. 20A-20F; FIG. 21E) was evaluated. Interestingly, the CD33+ pathogenic population (PPI-derived PBMC Myeloid Cluster 1) was most strongly enriched in the blood, but was also increased in the other compartments. All compartments were characterized by strong enrichment of pro-inflammatory Mo (PBMC Myeloid Cluster 6, Lung Myeloid Clusters 3 and 6, and BAL Myeloid Cluster 7), although A3 exhibited some differences in these populations compared to A1 and A2. Additionally, this comparison suggested enrichment of AMs in all three compartments; however, upon examination of the specific overlapping gene transcripts, the observed enrichment in blood A1 was primarily related to the presence of non-AM-specific myeloid genes. Finally, numerous common activators and functions of PPI-derived clusters were enriched uniformly across A1, A2, and A3, providing further evidence for pro-inflammatory activity of myeloid cell populations in COVID-19 blood and tissue compartments.

Trajectory analysis was performed to understand potential transitions of Mo/MΦ in various tissue compartments. This was based on the normalized 196 myeloid-cell specific genes, as well as 425 additional normalized genes that may be important in Mo/myeloid/MΦ cell differentiation, reflective of chemotaxis, IFN, and metabolism genes. This analysis suggested a branch point of differentiation of Mo/MΦ between blood and lung, with some blood Mo/MΦ differentiating directly to airway cells and others to lung cells in a more protracted manner as indicated by pseudotime (FIG. 21F).

Analysis of the biologic activities of myeloid subpopulations was performed as follows. To focus on functional distinctions among the co-expressed myeloid populations in the blood, lung, and airway compartments (A1-A3), linear regression analyses were utilized between GSVA scores for A1-A3 and scores for metabolic, functional, and signaling pathways (FIG. 22; FIGS. 20A-20F). Blood A1 was significantly correlated with glycolysis, the NLRP3 inflammasome, and the classical and lectin-induced complement pathways. In lung A2, there were no significant correlations detected with metabolism, but this population was significantly correlated with the NLRP3 inflammasome and the alternative complement pathway. Finally, airway A3 was positively correlated with OXPHOS, the classical complement pathway, and TNF signaling and negatively correlated with apoptosis. Overall, these results delineated the heterogeneity in metabolic and inflammatory pathways among myeloid cells enriched in the blood, lung, and airway of COVID-19 patients.

It was observed that pathway and upstream regulator analysis inform tissue-specific drug discovery for treatment of COVID-19, as follows. To understand the biology of SARS-CoV2-infected patients in greater detail, pathway analysis was conducted on DEGs from the 3 compartments using IPA canonical signaling pathway and upstream regulator (UPR) analysis functions (FIGS. 23A-23B). In general, IFN signaling, the inflammasome, and other components of anti-viral, innate immunity were reflected by disease state gene expression profiles compared to healthy controls (FIG. 23A). In addition, metabolic pathways including OXPHOS and glycolysis were significantly increased in the blood of COVID-19 patients compared to controls.

UPRs predicted to drive the responses in each compartment indicated uniform involvement of inflammatory cytokines, with Type I IFN regulation dominant in the SARS-CoV2-infected lung (FIG. 23B). Notable UPRs of COVID-19 blood included IFNA, IFNG, multiple growth factors and ligands, HIF1A, CSF1 and CSF2. Evidence of inflammatory cytokine signaling by IL17 and IL36A was predicted in COVID-19 lung and airway compartments. Whereas the airway DEG profile indicated regulation by both inflammatory and inhibitory cytokines, the COVID-19 lung UPRs were markedly inflammatory, including, NFκB, IL12, TNF, IL1B, and multiple Type I IFNs. These proinflammatory drivers were consistent in each individual lung which were analyzed separately because of the apparent heterogeneity between the lung samples (FIGS. 21A-21F).

IPA analysis was also employed to predict drugs that might interfere with COVID-19 inflammation (FIG. 23B, Tables 8A-8B). Of note, neutralizers of IL17, IL6, IL1, IFNA, IFNG, and TNF were predicted as antagonists of COVID-19 biology. Corticosteroids were predicted to revert the gene expression profile in the SARS-CoV-2-infected lung, but were predicted as UPRs of COVID-19 blood, which may indicate that the patients from whom blood was collected had been treated with corticosteroids rather than indicating that these agents were driving disease pathology. Chloroquine (CQ) and hydroxychloroquine (HCQ) were additionally predicted to revert the COVID-19 transcription profile in the lung, which may point to their potential utility as treatment options. A number of drugs matched to unique targetable pathways in the lung, including NFκB pathway inhibitors and neutralizers of the TNF family; however, some drugs also targeted pathways shared by both the lung and airway, including JAK inhibitors. In the BAL-CoV2 vs. PBMC-CoV2 IPA comparison, several drugs were matched to UPRs with a negative Z-score, which provided additional therapeutic options directed towards the blood of patients with COVID-19, given that molecules targeting downregulated or inhibited UPRs are molecules that could normalize the PBMC-CoV2 gene signature. As such, several possible therapeutics arose from this analysis to target COVID-19 blood, including ustekinumab, targeting the IL12/23 signaling pathway, and lenalidomide, which have immunosuppressive effects. In addition, IGF1R inhibitors, EGFR inhibitors, VEGFR inhibitors, and AKT inhibitors were among the compounds predicted to target COVID-19 PBMCs. No specific drugs were predicted to target all three tissue compartments, but each compartment was driven by inflammatory cytokines.

Another approach to predict possible drug targets is by employing connectivity scoring with drug-related gene expression profiles using the perturbagen CMAP database within CLUE (Tables 8A-8B). Although CLUE-predicted drugs tended to differ from those predicted by IPA or those matched to IPA-predicted UPRs, there were some overlapping mechanisms, including inhibition of AKT, angiogenesis, CDK, EGFR, FLT3, HSP, JAK, and mTOR. IPA-predicted drugs that were unique from connectivity-predicted drugs tended to capture more cytokine and lymphocyte biology, including inhibitors of IL1, IL6, IL17, TNF, type I and II interferon, CD40LG, CD38, and CD19, among other cytokines and immune cell-specific markers. Overall, the gene expression-based analysis of SARS-CoV2-infected blood and tissue compartments indicated several existing treatment options that may be evaluated as candidates to treat COVID-19, and subsequently administered to patients having COVID-19.

Multiple orthogonal bioinformatics approaches were employed to analyze DEG profiles from the blood, lung, and airway of COVID-19 patients, and revealed the dynamic nature of the inflammatory response to SARS-CoV-2 and possible points of therapeutic intervention. In the blood, evidence was seen of myeloid cell activation, lymphopenia, and elevation of plasma cells, as has been shown by both standard cell counts, flow cytometry and gene expression analysis (Ref 34). In the lungs, increased gene signatures were found of additional myeloid cell types including granulocytes, infiltrating inflammatory Mo, and AMs as well as the presence of non-activated T, B, and NK cells. Furthermore, inflammation in the lung tissue was enhanced by the greater presence of IFNs and more pro-inflammatory cytokines than observed in the blood. Finally, in the airway evidence was found of blood and AM-derived inflammatory and regulatory MΦs, and non-hematopoietic lung tissue cells accompanied by expression of SARS-CoV-2 receptors, and alarmins, indicative of viral infection and damage to the lung and consistent with detection of SARS-CoV2 in BAL fluid (Refs. 11 and 35). Together these findings indicate a systemic, but compartmentalized immune and inflammatory response with specific signs of cellular activation in blood, lung, and airway. This has informed a more comprehensive and integrated model of the nature of the local and systemic host response to SARS-CoV2.

The predominant populations of immune cells found to be enriched and activated in COVID-19 patients were myeloid cells and, in particular, subsets of inflammatory Mo and MΦs, which differed between the blood, lung, and airway compartments. In the peripheral blood, significant enrichment of Mo was found, including classically activated inflammatory M1 MΦs as well as a CD33+ myeloid subset, which appeared to be an M2 population reminiscent of characterized IFN-activated MΦs, AMs, and MDSCs, indicative of a potential regulatory population induced by stimuli arising from the SARS-CoV2-infected lung. Myeloid cells enriched in the blood of COVID-19 patients were also highly correlated with gene signatures of metabolic pathways (Glycolysis, Pentose Phosphate Pathway, and TCA cycle) indicative of pro-inflammatory M1 MΦs (Ref. 36).

The lung tissue was enriched in gene signatures of Mo/MΦs as well as other myeloid cells including two populations of granulocytes, neutrophils and LDGs. Increases in blood neutrophils may be associated with poor disease outcome in COVID-19 patients, and the formation of neutrophil extracellular traps (NETs) may contribute to increased risk of death from SARS-CoV2 infection (Refs. 37-39). In addition, populations of dysregulated neutrophils expressing pro-inflammatory or suppressive markers derived from scRNA-seq of COVID-19 patient PBMCs may be characterized and found to be positively correlated with disease severity (Refs. 18-19). These populations were found to be also increased in SARS-CoV2 infected lung tissue and, therefore, indicate that they may contribute to lung pathology. Although LDGs have not been reported in the COVID-19 lung, in comparison to neutrophils, they exhibit an enhanced capacity to produce Type I IFNs and form NETs and therefore, may have an even greater impact on disease progression (Ref 40).

Mo/MΦ subsets in the lung of COVID-19 patients were characterized as infiltrating inflammatory Mo and activated AMs, which exhibited a mixed metabolic status suggestive of different states of activation. Infiltrating Mo from the peripheral blood appeared to be further activated in the lung tissue as evidenced by enhanced expression of markers of highly inflammatory Mo characterized in severe COVID-19 cases (Ref 27). The AM population enriched in COVID lung tissue clustered with genes involved in the coagulation system, which is consistent with observations of procoagulant AM activity in COVID-19 and in ARDS (Ref. 41). As pulmonary thrombosis has been associated with poor clinical outcomes in COVID-19 patients, this result indicates that activated AMs in SARS-CoV2-infected lung tissue may be involved in facilitating a pro-thrombotic status, and thereby, contribute to poor disease outcome (Ref 42). Finally, a trend was noted toward an increase in platelets specifically in the COVID-19 lung, indicating that they may also contribute to thrombosis in some patients.

In the airway, gene signatures were detected of various post-activated MΦ subsets including inflammatory M1 MΦs, alternatively activated M2 MΦs, and activated AMs. Expression of myeloid cell genes in the airway also correlated with a signature of oxidative metabolism, which is characteristic of M2 macrophages and typically associated with control of tissue damage (Ref. 36). However, in the context of pulmonary infection, polarization of AMs toward an anti-inflammatory M2 phenotype was found to promote continued inflammation, suggesting that these MΦs may not be effective at resolving anti-viral immunity (Ref. 43).

In addition to myeloid cells, inflammatory mediators from the virally infected lung typically promote migration and activation of NK cells and adaptive immune cells including T and B cells (Ref 8). Significant deficiencies were found in gene signatures of T cells and cytotoxic CD8 and NK cells, consistent with clinical evidence of lymphopenia in the peripheral blood and airway of COVID-19 patients (Refs. 44-47). In contrast to T and NK cells, increased evidence was observed of B cell activation through CD40/CD40L and an increased plasma cell signature in the blood of COVID-19 patients. This result indicates that COVID-19 patients are able to mount an antibody-mediated immune response. However, whether a virus-specific antibody response is beneficial to recovery from SARS-CoV2 infection may be unclear (Ref. 48). Low quality, low affinity antibody responses to SARS-CoV may promote lung injury in some patients, although it may be unknown if this occurs in SARS-CoV2 infected individuals (Refs. 49-50).

The contents of the airway as assessed through the BAL fluid, act as a window into events in the alveoli and airways and can be used to understand what is happening in the infected tissue that is separate from the interstitium of the lung (Refs. 51-52). Increased enrichment was found of lung epithelial cells in the airway of COVID-19 patients, indicating that SARS-CoV2 infection of alveolar cells together with localized inflammation as a result of enhanced myeloid cell infiltration promote significant damage to the alveoli and result in affected cells being sloughed into the airway. Furthermore, the lack of cytotoxic cells and thus, the inability to clear these virus-infected lung epithelial cells in the airway likely accounts for the increased presence of post-activated MΦs and high expression of pro-inflammatory IL-1 family members observed in the BAL of COVID-19 patients. Importantly, these results indicate that sampling of BAL may provide an important mechanism to evaluate the impact of SARS-CoV2 infection.

DEGs from COVID-19 patients were enriched in IGS, complement pathways, inflammatory cytokines and the inflammasome, which may be expected to activate Mo/MΦ populations in the blood, lung, and airway of COVID-19 patients and initiate a robust and systemic response to infection. In particular, these results indicate that IL-1 family-mediated inflammation plays a critical role in COVID-19 pathogenesis. However, pro-inflammatory genes identified via GWAS as contributing to COVID-19 inflammation, including CCR2, CCR3, CXCR6, and MTA2B, were not significantly different from controls in the lung dataset (Ref 53). Thus, in contrast to characterizations of both SARS-CoV and SARS-CoV2 infection, these analyses did not indicate the presence of overwhelming pro-inflammatory cytokine production or “cytokine storm” in COVID-19 patients (Refs. 34 and 54). Rather, these data indicates that the increased numbers, overactivation, and potentially heightened pathogenicity of monocyte/MΦ populations are the main drivers of the dysregulated inflammatory response and resulting tissue damage in COVID-19 patients.

In the absence of proven antiviral treatment and/or a SARS-CoV2-specific vaccine, disease management may be reliant upon supportive care and therapeutics capable of limiting the severity of clinical manifestations. Using empiric evidence as a guide, the current approach may be successful in identifying “actionable” points of intervention in an unbiased manner and in spite of formidable patient heterogeneity. Analyses presented here support COVID-19 infection-related increases in inflammatory cytokines, particularly IL6 and TNF, both of which function as predictors of poor prognosis (Refs. 55-56), as well as complement activation (Refs. 37 and 57-58). Accordingly, anti-IL6 therapies including sarilumab, tocilizumab and clazakizumab, as well as biologics targeting terminal components of the complement cascade, such as eculizumab and ravulizumab, are in various clinical trial phases for treating COVID associated pneumonia. Candidate TNF blockers such as adalimumab, etanercept and many others, represent additional options for inhibiting deleterious pro-inflammatory signaling. However, most showed patient heterogeneity, indicating a requirement to identify the specific cytokine profile in each patient in order to offer personalized treatment. Our analyses also indicate the likely involvement of pro-inflammatory IL1 family members especially in the lung, suggesting anti-IL1 family interventions, including canakinumab and anakinra, may be effective in preventing acute lung injury.

This analysis also establishes the predominance of inflammatory Mo/myeloid lineage cells in driving disease pathology and indicates therapies effective at blocking myeloid cell recruitment or forcing repolarization may prevent disease progression. CCL5 (RANTES) is a potent leukocyte chemoattractant that interacts with multiple receptors, including CCR1 (upregulated in the blood, lung and airway), and CCR5 (upregulated in the airway). Disruption of the CCR5-CCL5 axis may be tested using the CCR5 neutralizing monoclonal antibody leronlimab in a compassionate use trial (Ref 59).

It may be observed that COVID-19 may predispose patients to thromboembolic disease (Refs. 60-61). Indeed, the gene expression analyses presented here showing altered expression of coagulation factors and fibrinogen genes indicate dysfunction within the intrinsic clotting pathway. These findings, together with evidence of excessive inflammation, complement activation and the involvement of LDGs in lung inflammation, may contribute to the systemic coagulation underlying the remarkably high incidence of thrombotic complications observed in severely ill patients, thereby reinforcing recommendations to apply pharmacological anti-thrombotic medications.

Further, anti-rheumatic drugs may be used for managing COVID-19. For example, CQ is a compound predicted as a UPR with potential phenotype-reversing properties. In vitro experiments examining the anti-viral properties of CQ and its derivative HCQ were effective in limiting viral load; however, the efficacy of these drugs in clinical trials has been less clear (Ref. 62). Questions about drug timing, dosage and adverse events may call into question the use of these drugs for COVID-19 patients. Despite results showing no negative connectivity between the gene signatures of SARS-CoV2 infection and HCQ treatment (Ref. 35), IPA predicted a role of anti-malarials as limiting the function of intracellular TLRs in the lung and also as a direct negative UPR of gene expression abnormalities in the lung, indicating a role in controlling COVID-19 inflammation and not viral replication. Further clinical testing may be performed to establish this possible utility; subsequently, these anti-malarials may be administered to COVID-19 patients to treat disease.

By comparing the transcriptomic profile of the blood, lung, and airway in COVID-19 patients, a model of the systemic pathogenic response to SARS-CoV2 infection has emerged (FIG. 24). SARS-CoV2 infection leads to systemic Mo/MΦ activation, likely as a result of the release of pro-inflammatory mediators from infected cells. Infiltration of immune cells into the lung tissue and alveolus, in particular, neutrophils, LDGs, and pathogenic Mo/MΦ populations promotes a cycle of inflammatory mediator release and further myeloid cell activation, which exacerbates inflammation in the lung and leads to tissue damage. The local release of complement components and clotting factors by infiltrating Mo/MΦ may contribute to both inflammation and thrombotic events. As disease progresses, increased infiltration of pro-inflammatory immune cells, release of inflammatory mediators, and damage to the infected alveolus is reflected by the presence of Mo/MΦ cells and lung epithelial cells in the airway (Ref 51). Furthermore, evidence of both Mo-derived inflammatory MΦs and AMs in the airway compartment indicates that myeloid cell populations from both the blood and the lung tissue are present in the BAL. The accumulation of virus-infected cells and release of alarmins in the airway may not only reflect ongoing infection, but also promote inflammation and prevent resolution of the infection and foster the continuation of the innate immune response. Therefore, sampling the BAL fluid is an effective strategy to monitor tissue inflammation and damage in COVID-19 patients.

As SARS-CoV2 continues to propagate, viral clearance may be impaired by a lack of cytotoxic CD8 T cells and NK cells. This is consistent with MAS occurring in other settings, in which defects in cytotoxic activity of CD8 T cells and NK cells result in enhanced innate immune cell activation and intensified production of pro-inflammatory cytokines, many of which were also expressed in COVID-19 patients (Refs. 9-10). Thus, the results indicated that the lack of activated CD8 T cells and NK cells and subsequent failure to clear virus-infected cells, is a major contributor to the MΦ-driven pathologic response to SARS-CoV2 observed in COVID-19 patients.

In order to develop a model of SARS-CoV2 infection, multiple orthogonal approaches were utilized to analyze gene expression from COVID-19 patients. Heterogeneity among patients in any given cohort may have an increased impact on the overall outcome. One possible reason for this intra-cohort heterogeneity is that the patients may have exhibited varying levels of disease severity. Therefore, additional studies may be performed on more patients, such as by accounting for differences in demographic information and disease status, in order to increase the power of downstream analyses.

As shown, transcriptomic analysis has contributed critical insights into the pathogenesis of COVID-19. Diffuse Mo/MΦ activation is the likely primary driver of clinical pathology. Therefore, this work provides a rationale for placing greater focus on the detrimental effects of exaggerated activation of pathogenic Mo/MΦs and for targeting these populations as an effective treatment strategy for COVID-19 patients.

Ethics statement: publicly available data sets used in this study are listed in Table 5. For each dataset, all patient samples were collected in adherence to local regulations and after obtaining institutional review board approved informed consent. The study corresponding to accession number CRA002309 was approved by the Ethics Committee of the Zhongnan Hospital of Wuhan University. The study corresponding to accession number GSE147505 was approved by the institutional review board at the Icahn School of Medicine at Mount Sinai under protocol HS #12-00145.

Read quality, trimming, mapping and summarization were performed as follows. RNA-seq data were processed using a consistent workflow using FASTQC, Trimmomatic, STAR, Sambamba, and featureCounts. As described below SRA files were downloaded and converted into FASTQ format using SRA toolkit. Read ends and adapters were trimmed with Trimmomatic (version 0.38) using a sliding window, ilmnclip, and headcrop filters. Both datasets were head cropped at 6 bp and adapters were removed before read alignment. Reads were mapped to the human reference genome hg38 using STAR, and the .sam files were converted to sorted .bam files using Sambamba. Read counts were summarized using the featureCounts function of the Subread package (version 1.61).

The RNA-seq tools are all free, open source programs, as follows: SRA toolkit (github.com/ncbi/sra-tools); FastQC (www.bioinformatics.babraham.ac.uk/projects/fastqc/); Trimmomatic (www.usadellab.org/cms/?page=trimmomatic); STAR (github.com/alexdobin/STAR); labshare.cshl.edu/shares/gingeraslab/www-data/dobin/STAR/STAR.posix/doc/STARmanual.pdf; Sambamba (lomereiter.github.io/sambamba/); and FeatureCounts (subread.sourceforge.net).

Differential gene expression and gene set enrichment analysis were performed as follows. The DESeq2 workflow was used for differential expression analysis. Comparisons were made between control PBMCs and PBMCs from COVID-19 patients (PBMC-CTL vs. PBMC-CoV2) and control lung tissue and lung tissue from COVID-19 patients (Lung-CTL vs. Lung-CoV2). Since no corresponding control BAL samples were available for the COVID-19 BAL samples, BAL samples were compared from COVID-19 patients to COVID-19 PBMC (PBMC-CoV2 vs BAL-CoV2). This was possible because these samples were analyzed on the same platform, run at the same time. Also, normal BAL were compared to BAL of asthmatic individuals to identify genes unrelated to COVID-19 (PRJNA434133).

Two technical replicates were included for BAL cohort, and 4 technical replicates were included for postmortem lung samples. The replicates were collapsed and averaged into one using collapsereplicates function from DESeq2 package. The genes with low expression (i.e genes with very few reads) were removed by filtration. The filtered raw counts were normalized using the DESeq method and differentially expressed genes were determined by FDR<0.2 (Ref 63). Counts were then log 2 transformed and used for downstream analyses (Table 6).

Gene Set Variation Analysis (GSVA) was performed as follows. The GSVA (version 1.25.0) software package (Ref. 64) is an open source package available from R/Bioconductor and was used as a non-parametric, unsupervised method for estimating the variation of pre-defined gene sets in patient and control samples of microarray and RNA-seq expression data sets (www.bioconductor.org/packages/release/bioc/html/GSVA.html). The inputs for the GSVA algorithm were a gene expression matrix of log 2 expression values for pre-defined gene sets. All genes within a gene set were evaluated if the interquartile range (IQR) of their expression across the samples was greater than 0. Enrichment scores (GSVA scores) were calculated non-parametrically using a Kolmogorov Smirnoff (KS)-like random walk statistic and a negative value for a particular sample and gene set, indicating that the gene set has a lower expression than the same gene set with a positive value. The enrichment scores (ES) were the largest positive and negative random walk deviations from zero, respectively, for a particular sample and gene set. The positive and negative ES for a particular gene set depend on the expression levels of the genes that form the pre-defined gene set. GSVA calculates enrichment scores using the log 2 expression values for a group of genes in each SARS-CoV2 patient and healthy control and normalizes these scores between −1 (no enrichment) and +1 (enriched). Welch's t-test was used to calculate the significance of the gene sets between the cohorts. Significant enrichment of gene sets was determined by p-value <0.05.

Derivation of GSVA Gene Sets was performed as follows. Cellular and inflammatory modules and IFN-induced gene sets were derived (Refs. 14-15). Additional inflammatory pathways (NLRP3 Inflammasome, Classical Complement, Alternative Complement, and Lectin-induced Complement were curated from the Molecular Signatures Database. Other signatures were derived (Refs. 27, 30-33, and 65).

Additional hematopoietic cellular gene signatures (monocyte, myeloid, and neutrophil) were derived from I-Scope, a tool developed to identify immune cell specific genes in big data gene expression analyses. Non-hematopoietic fibroblast and lung cell gene sets were derived from T-Scope, a tool developed to identify genes specific for 45 non-hematopoietic cell types or tissues in big gene expression datasets. The T-Scope database contains 1,234 transcripts derived initially from 10,000 tissue enriched and 8,000 cell line enriched genes listed in the Human Protein Atlas. From the list of 18,000 potential tissue or cell specific genes, housekeeping genes and genes differentially expressed in 40 hematopoietic cell datasets were removed. The final gene lists were checked against available single cell analyses to confirm cellular specificity.

Nine single-cell RNA-seq lung cell populations (AT1, AT2, Ciliated, Club, Endothelial, Fibroblasts, Immuno Monocytes, Immuno T Cells, and Lymphatic Endothelium) were downloaded from the Eils Lung Tissues set (Ref. 66) accessed by the UC Santa Cruz Genome Browser (eils-lung.cells.ucsc.edu). Genes occurring in more than one cell type were removed. Additionally, genes known to be expressed by immune cells were removed. The Eils Lung Tissues set Immuno Monocyte, Immuno T Cell, Fibroblast, and Lymphatic Endothelium categories were not employed in further analyses.

Apoptosis and NFkB gene signatures were derived and modified from Ingenuity Pathway Analysis pathways Apoptosis Signaling and NFkB Signaling. ROS-protection was derived from Biologically Informed Gene-Clustering (BIG-C).

Network analysis and visualization were performed as follows. Visualization of protein-protein interaction and relationships between genes within datasets was done using Cytoscape (version 3.6.1) software. STRING (version 1.3.2) generated networks were imported into Cytoscape (version 3.6.1) and partitioned with MCODE via the clusterMaker2 (version 1.2.1) plugin. For PPIs in FIGS. 20A-20C, STRING settings were adjusted to high confidence (0.7), for PPIs in FIGS. 20D-20F, settings were relaxed to medium confidence (0.4). All PPIs were generated without the neighborhood or textmining features. For some PPIs, the average interaction strength using STRING-based cumulative interaction scores was used to determine the strength of interaction between clusters.

Functional and cellular enrichment analysis was performed as follows. Functional enrichment of clusters was performed using Biologically Informed Gene-Clustering (BIG-C), which was developed to understand the potential biological meaning of large lists of genes (Ref 67). Genes are clustered into 53 categories based on their most likely biological function and/or cellular localization based on information from multiple on-line tools and databases including UniProtKB/Swiss-Prot, GO terms, KEGG Pathways, MGI database, NCBI PubMed, and the Interactome. Hematopoietic cellular enrichment was performed using I-Scope, a tool developed to identify immune cell specific genes in big data gene expression analyses. Statistically significant enriched types of cell types in DEGs were determined by Fisher's Exact test overlap p-value and then determining an Odds Ratio of enrichment.

Derivation of co-expressed myeloid subpopulations in each compartment was performed as follows. Co-expression analyses were conducted in R. Sample (control and patient) log 2 expression values for each gene of the 221 identified monocyte/myeloid cell genes in were analyzed for their Pearson correlation coefficient in each tissue compartment (blood, lung, and airway) using the Cor function. Of note, only 196 of 221 genes had changes in gene expression in at least one tissue by RNA-seq. Pearson correlations for these 196 genes were hierarchically clustered by their Euclidian distance into 2 clusters (k=2) using the heatmap.2 function in R. This resulted in 2 Mo/myeloid co-expressed clusters in each compartment corresponding to increased and decreased gene sets. The upregulated co-expressed genes were used to define the A1, A2, and A3 myeloid subpopulations from the blood, lung, and airway compartments, respectively (Tables 7A-7C). The co-expressed myeloid populations in each compartment (A1-A3) were then evaluated for enrichment by GSVA.

Inter-compartment myeloid gene comparisons were performed as follows. To compare relative expression of the 196 myeloid-specific genes among compartments, HTS filtered log 2 expression values for each gene were normalized to the average expression of FCGR1A, FCGR2A, and FCGR2C in each sample. Welch's t-test was used to calculate the significant differences in normalized gene expression between cohorts. Effect sizes were computed between cohorts using the cohen.d function with Hedges' correction in R.

Monocle analyses were performed as follows. Trajectory analyses were performed with Monocle (Refs. 68-70) version 2.14.0 in R. Gene expression values for 621 genes related to myeloid cell differentiation and function including cell surface and secreted markers, M1 and M2 markers, metabolism, and IFN genes were selected as a curated input list (Tables 7A-7C). The HTS filtered log 2 expression values for each of these genes in each sample for each tissue type (PBMC-CoV2, Lung-CoV2, and BAL-CoV2) was normalized by the average log 2 expression of FCGR1A, FCGR2A, and FCGR2C in that particular sample as described above. Normalized expression of these genes was used as the input expression data for Monocle. The CellDataSet was created with parameters of lowerDetectionLimit=0.01 and expressionFamily=uninormal( ). Dimensions were reduced using the DDRTree method, and the max_components parameter was set to 2. Cell state was ordered based upon the state corresponding to PBMC-CoV2.

Linear Regression Analysis was performed as follows. Simple linear regression between calculated myeloid subpopulation A1, A2, and A3 GSVA scores and biological functions or signaling pathway GSVA scores was performed in GraphPad Prism Version 8.4.2. In all analyses where pathway genes (e.g. classical complement) were also myeloid cell genes, these genes were removed from the myeloid GSVA score for that comparison and kept in the pathway GSVA score. For each regression analysis, the Goodness of Fit is displayed as the R squared value and the p-value testing the significant of the slope is displayed. All p-values are displayed with 3 digits and rounded-up unless rounding changes significance.

Ingenuity Pathway Analysis (IPA) was performed as follows. The canonical pathway and upstream regulator functions of IPA core expression analysis tool (Qiagen) were used to interrogate DEG lists. Canonical pathways and upstream regulators were considered significant if |Activation Z-Score|≥2 and overlap p-value <0.01. Chemical reagents, chemical toxicants, and endogenous non-mammalian ligands were culled from all upstream regulator analyses.

Drug-Target Matching was performed as follows. IPA-predicted upstream regulators were annotated with respective targeting drugs and compounds to elucidate potential useful therapies in SARS-CoV2. Drugs targeting gene products of interest by both direct and indirect targeting mechanisms were sourced by Combined Lupus Treatment Scoring (CoLTS)-scored drugs (Ref 71), the Connectivity Map via the drug repurposing tool, DrugBank, and literature mining. Similar methods were employed to determine information about drugs and compounds, including mechanism of action and stage of clinical development. The drug repurposing tool was accessed at clue.io/repurposing-app.

Analysis of COVID-19 PBMC, Lung, and BAL DEG profiles via CLUE was performed as follows. DEGs from PBMC-CoV2 vs. PBMC-CTL, Lung-CoV2 vs. Lung-CTL, and BAL-CoV2 vs. PBMC-CoV2 were used as input for the CMaP and LINCS Unified Environment (CLUE) cloud-based connectivity map analysis platform (clue.io/connectopedia/). Top upregulated and downregulated DEGs from each signature as determined by magnitude of log 2 fold change were sequentially entered into CLUE until 150 of each were accepted for analysis to determine drugs, compounds, small molecules, and other perturbagens that mimic or oppose the uploaded COVID-19 gene expression signatures. Resultant drugs and compounds with negative connectivity scores in the [−75, −100] range were analyzed to include results with high confidence of antagonizing COVID-19 gene expression profiles.

Data Availability: the datasets analyzed in this study are available from the China National Center for Bioinformation's National Genomics Data Center, bigd.big.ac.cn/gsa/browse/CRA002390, and in the NCBI GEO repository www.ncbi.nlm.nih.gov/bioproject/PRJNA615032. Additional data generated or analyzed during this study are described by, for example, Daamen et al., “Comprehensive transcriptomic analysis of COVID-19 blood, lung, and airway”, Scientific Reports, Vol. 11, No. 7052 (2021), which is incorporated by reference herein in its entirety.

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FIG. 17 shows conserved and differential enrichment of immune cells and pathways in blood, lung, and airway of SARS-CoV2-infected patients. (sections a-d) Individual sample gene expression from the blood (section a), lung (section b), and airway (section c) was analyzed by GSVA for enrichment of immune cell and inflammatory pathways. The corresponding heatmap was generated using the R Bioconductor package complexHeatmap (v2.5.6) (Ref 72). Select enrichment scores are shown as violin plots in (section d) generated using GraphPad Prism v8.4.2 (www.graphpad.com). *p<0.05, **p<0.01.

FIGS. 20A-20F show that PPI analysis identifies different myeloid cell subsets and metabolic pathways in blood, lung, and airway of COVID-19 patients. DE upregulated genes from blood (FIG. 20A), lung (FIG. 20B), and airway (FIG. 20C) were used to create PPI metaclusters using Cytoscape (version 3.6.1) and the clusterMaker2 (version 1.2.1) plugin (Ref. 73). Size indicates the number of genes per cluster, color indicates the number of intra-cluster connections and edge weight indicates the number of inter-cluster connections. Enrichment for biological function and immune cell type was determined by BIG-C and I-Scope, respectively. Small clusters (˜14 genes) with similar function are grouped in dotted-line boxes. Clusters enriched in Mo/myeloid genes were combined by decreasing cluster stringency to create a new set of myeloid-derived metastructures from the blood (FIG. 20D), lung (FIG. 20E), and airway (FIG. 20F). Interaction scores showing the strength of interaction between clusters are indicated (0.4-0.6, medium interaction; 0.61-0.8, strong interaction; 0.81-0.99, very strong interaction).

FIGS. 21A-21F show that different co-expression-derived myeloid populations are found in blood, lung, and airway of COVID-19 patients. (FIG. 21A) GSVA enrichment of myeloid subpopulations increased in COVID-19 blood (A1), lung (A2), and airway (A3). (FIG. 21B) Venn Diagram of the gene overlap between myeloid subpopulations A1-A3. (FIG. 21C) Comparison of normalized log 2 fold change expression values of genes defining A1-A3. Expression values for each sample in each comparison were normalized by the mean of the log 2 fold change expression of FCGR1A, FCGR2A, and FCGR2C. Significant comparisons are displayed by Hedge's G effect size. (FIGS. 21D-21E) Characterization of A1-A3 by enrichment of myeloid populations (FIG. 21D) and PBMC, lung, and BAL myeloid metaclusters from FIGS. 20D-20F (FIG. 21E). Fisher's Exact Test was used to calculate overlap between transcriptomic signatures and significant overlaps (p<0.05) are shown as the negative logarithm of the p-value. (FIG. 21F) Trajectory analysis using expression of 621 genes (196 myeloid-specific genes used in a,b+425 additional myeloid genes shown in Tables 7A-7C) in the blood, lung, and airway compartments. Colors represent sample identity and size represents pseudotime distance along the trajectory. Generated using GraphPad Prism v8.4.2 (www.graphpad.com) and the R package Monocle v2.14.0 68-70.

FIG. 22 shows an analysis of biological activities of myeloid subpopulations. Linear regression between GSVA scores for each of the tissue-specific myeloid populations (A1-A3) and metabolism, NLRP3 Inflammasome, complement, apoptosis, and TNF signaling. Generated using GraphPad Prism v8.4.2 (www.graphpad.com).

FIGS. 23A-23B show a pathway analysis of SARS-CoV-2 blood, lung, and airway. DEGs from each SARS-CoV-2 blood or tissue pairwise comparison were uploaded into IPA (Qiagen Inc., www.qiagenbioinformatics.com/products/ingenuity-pathway-analysis) and canonical signaling pathway (FIG. 23A) and upstream regulator (FIG. 23B) analyses were performed. Heatmaps represent significant results by Activation Z-Score |≥2| and overlap p-value<0.01. The boxes with the dotted outline separate drugs that were predicted as upstream regulators from pathway molecules and complexes. The remaining, significant upstream regulators were matched with drugs with known antagonistic targeting mechanisms. The top 150 UPRs in the lung are shown in (FIG. 23B) and the remaining are in FIGS. 29A-29E. Specific drugs for particular drug families (e.g., Anti-IL17) are found in Tables 8A-8B.

†: FDA-approved

‡: Drug in development/clinical trials

FIG. 24 shows a graphical model of COVID-19 pathogenesis. Proposed model of the inflammatory response to SARS-CoV2 infection in three compartments: the blood, lung, and airway generated using Microsoft PowerPoint version 19.0 and Adobe Illustrator version 25.0.

FIGS. 25A-25D show that metaclusters identify differentially expressed cell populations and functional gene clusters in SARS-CoV2 infected tissues and cell lines. Downregulated DE genes from peripheral blood (FIG. 25A), lung (FIG. 25B), and airway (FIG. 25C), and up-regulated DE genes from the NHBE primary lung epithelial cell line (FIG. 25D) were used to create metaclusters. Metaclusters were generated based on PPI networks, clustered using MCODE and visualized in Cytoscape as in FIGS. 20A-20F. Size indicates the number of genes per cluster, color indicates the number of intra-cluster connections and edge weight indicates the number of inter-cluster connections. Cluster enrichment for biological function and immune cell type was determined by BIG-C and I-Scope, respectively.

FIGS. 26A-26F show an evaluation of macrophage gene signatures in myeloid-derived clusters from COVID-affected blood, lung and BAL fluid. Macrophage signatures from the indicated sources were compared to myeloid clusters from FIGS. 19A-19D. Heatmap depicts signatures with significant overlap (−log (p-value)>1.33) with myeloid clusters from the blood, lung and airway compartments generated using GraphPad Prism v8.4.2 (www.graphpad.com). N/A, non-applicable/non-significant overlap detected. R & D Systems provided signatures for the M1, M2a, M2b, M2c and M2d populations.

FIG. 27 shows heterogeneous expression of monocyte/myeloid cell genes in different CoV2 tissue compartments as compared to control. Evaluation of differential expression of 171 monocyte/myeloid genes in each compartment reveals shared and disparate expression among the tissues. PBMC represents PBMC-CoV2 to PBMC-CTL. Lung represents Lung-CoV2 to Lung-CTL. BAL represents BAL-CoV2 to PBMC-CoV2. Scale bar presents Log 2 Fold Change. N/A represents genes that were not significantly DE at FDR<0.2. Heatmaps generated using GraphPad Prism v8.4.2 (www.graphpad.com).

FIG. 28 shows an analysis of biological activities of myeloid subpopulations. Linear regression between GSVA scores for each of the tissue-specific myeloid populations and metabolic pathways, inlammasome, complement pathways, NFκB complex signaling and ROS protection. Generated using GraphPad Prism v8.4.2 (www.graphpad.com).

FIGS. 29A-29E show a pathway analysis of SARS-CoV-2 lung tissue. FIG. 29A: Remaining significant upstream regulators operative in SARS-CoV-2 lung tissue predicted by IPA upstream regulator analysis. Upstream regulator analysis was also conducted on DEGs from each individual COVID-19 lung compared to healthy controls due to observed heterogeneity FIG. 29B: significant results displayed for Lung1-CoV2 vs. Lung-CTL. FIG. 29C: significant results displayed for Lung2-CoV2 vs. Lung-CTL. Chemical reagents, chemical toxicants, and non-mammalian endogenous chemicals were culled from results. The boxes with the dotted outline separate small molecules/drugs/compounds that were predicted as upstream regulators from pathway molecules and complexes. FIGS. 29D-29E: IPA canonical signaling pathway analysis was conducted on individual COVID-19 lung samples. Pathways and upstream regulators were considered significant by |Activation Z-Score|≥2 and overlap p-value <0.01.

TABLE 5

Summary of datasets used

RNA-

seq

Dataset
Accessibility
Metadata
Method

CRA002309
bigd.big.ac.cn/gsa/
3 PBMC
Illumina

browse/CRA002390
SARS-
NovaSeq

CoV-2
5000

3 PBMC

healthy

donor

3 BALF

SARS-

CoV-2

GSE147505
www.ncbi.nlm.nih.gov/
2
Illumina

bioproject/PRJNA615032
postmortem
NextSeq

lung
500

2 healthy

lung

General COVID Patient/Sample Information

Sample

Age
Collection and

Dataset
Cohort
Gender
(years)
Isolation

CRA002309
PBMC CoV2
3 Males
25-74
PBMC were

isolated using

Ficoll density

gradient method

PBMC CTL
3 Unknown
Unknown

Gender

BAL CoV2
3 Males
25-74
BAL fluid was

retrieved by

gentle syringe

suction using

sterile saline

GSE147505
Lung CoV2
2 Males
>60
Acquired post-

mortem as fixed

lung samples

Lung CTL
2 Males
>70
Acquired from

biopsies of

uninfected lungs

obtained post-

surgery

TABLE 6

(DEGs in Blood, Lung, and Airway)

PBMC-CoV2 to PBMC-CTL (4,245 DEGs in Blood)

A2M, AAGAB, AAK1, AAMP, AAR2, ABCA2, ABCA3, ABCA5, ABCA6, ABCA7,

ABCB1, ABCB7, ABCC2, ABCD1, ABHD15, ABHD17A, ABHD6, ABI2, ABITRAM,

ABLIM1, ABRACL, ABT1, ACAA2, ACACB, ACAD10, ACADSB, ACADVL, ACAP1,

ACCS, ACD, ACER3, ACHE, ACLY, ACO2, ACOT2, ACOT8, ACOT9, ACOX3, ACP2,

ACP5, ACSL3, ACSS2, ACTA1, ACTB, ACTG1, ACTR1A, ACTR1B, ACTR2, ACTR5,

ACVRIB, ACVRIC, ACVR2B, ACVRL1, ACYP1, ADA2, ADAM15, ADAM19,

ADAM22, ADAM23, ADAM8, ADAM9, ADAMTS10, ADAMTS17, ADAMTS2,

ADAMTS4, ADAMTSL5, ADAP2, ADARB1, ADGRB2, ADGRE3, ADGRE5, ADGRG1,

ADGRG5, ADGRL1, ADGRL2, ADH5, ADIPOR1, ADORA2A, ADORA3, ADPGK,

ADPRH, ADRM1, AEBP2, AFAP1, AFMID, AGAP1, AGAP2, AGAP9, AGBL3, AGFG1,

AGFG2, AGK, AGL, AGPAT2, AGPAT3, AGRN, AGTRAP, AHCY, AHCYL1, AHDC1,

AIF1, AIFM1, AIMP2, AJM1, AK2, AK4, AK5, AKAP12, AKAP17A, AKAP5, AKAP9,

AKIP1, AKNA, AKR1A1, AKR1C3, AKT3, ALAD, ALAS1, ALCAM, ALDH1A1,

ALDH1L2, ALDH2, ALDH3A2, ALDH3B1, ALDH4A1, ALDH9A1, ALDOA, ALG1,

ALG14, ALG8, ALKBH4, ALOX15, ALOX15B, ALOX5, ALPL, ALS2CL, AMD1,

AMDHD2, AMIGO1, AMIGO2, AMMECR1, AMN, AMOT, AMPD2, AMPH, ANAPC15,

ANG, ANGPTL6, ANK1, ANK3, ANKLE1, ANKMY1, ANKRA2, ANKRD11, ANKRD12,

ANKRD22, ANKRD34A, ANKRD34B, ANKRD36, ANKRD36B, ANKRD36C, ANKRD37,

ANKRD39, ANKRD44, ANKRD46, ANKRD49, ANKRD50, ANKRD52, ANKRD54,

ANKRD55, ANKS3, ANKS6, ANKZF1, ANLN, ANO10, ANO5, ANO9, ANXA2, ANXA4,

ANXA5, ANXA7, AOAH, AOC2, AOC3, AP1B1, AP1S1, AP2M1, AP2S1, AP3M1,

AP3M2, AP3S1, AP4S1, APBA3, APBB1, APC2, APEX2, APH1A, API5, APLP2, APMAP,

APOE, APOL4, APOLD1, APP, ARCN1, AREG, ARF1, ARF4, ARGLU1, ARHGAP12,

ARHGAP15, ARHGAP18, ARHGAP23, ARHGAP24, ARHGAP25, ARHGAP29,

ARHGAP31, ARHGAP33, ARHGAP4, ARHGAP5, ARHGAP9, ARHGEF1, ARHGEF11,

ARHGEF18, ARHGEF19, ARHGEF3, ARHGEF35, ARHGEF5, ARHGEF9, ARID3B,

ARID4A, ARID4B, ARID5B, ARL10, ARL11, ARL4A, ARL4C, ARL6, ARL6IP1, ARL8B,

ARMC2, ARMH3, ARMT1, ARNT, ARNTL2, ARPC1B, ARPC3, ARPC5, ARPIN,

ARRDC3, ARRDC4, ARSA, ARSB, ARV1, ARVCF, ASAH1, ASAH2B, ASB13, ASCL2,

ASGR1, ASGR2, ASH2L, ASL, ASPH, ASPM, ASPRV1, ASTE1, ATAD3B, ATF4, ATF7,

ATG12, ATG16L1, ATG2A, ATG3, ATG4A, ATG7, ATG9B, ATM, ATN1, ATP10D,

ATP11A, ATP1B3, ATP23, ATP2A2, ATP2A3, ATP2B1, ATP2B4, ATP5F1A, ATP5F1B,

ATP5F1C, ATP5F1E, ATP5MC1, ATP5MC2, ATP5MC3, ATP5MF, ATP5MG, ATP5MPL,

ATP5PB, ATP5PD, ATP5PF, ATP6AP1, ATP6AP2, ATP6V0A1, ATP6V0A2, ATP6V0D1,

ATP6V0E1, ATP6V0E2, ATP6V1A, ATP6V1B2, ATP6V1C1, ATP6V1D, ATP6V1E1,

ATP6V1F, ATP8B1, ATP8B2, ATPSCKMT, ATRX, ATXN10, ATXN7L2, ATXN7L3B,

AURKA, AURKB, AUTS2, AVIL, AVPR2, AXIN1, AXIN2, AZI2, AZIN1, AZIN2, B2M,

B3GAT1, B3GLCT, B4GALNT4, B4GAT1, B9D2, BACE1, BACH1, BACH2, BAG5,

BAHCC1, BAHD1, BAK1, BAMBI, BASP1, BATF2, BAX, BBX, BCAS2, BCAT1,

BCKDHA, BCKDHB, BCKDK, BCL11B, BCL2A1, BCL2L13, BCL7C, BCL9L, BCR,

BDP1, BEGAIN, BEX2, BEX4, BEX5, BFAR, BFSP1, BHLHA15, BICDL1, BICRA, BIN1,

BIN3, BIRC5, BLM, BLNK, BLOC1S4, BLVRA, BLVRB, BMERB1, BMF, BMI1,

BMP2K, BMPR1A, BNC2, BNIP2, BNIP3, BOD1L1, BPI, BPTF, BRCA1, BRCA2, BRD1,

BRD9, BRF2, BRI3, BRICD5, BRIX1, BRK1, BRPF3, BSG, BST1, BST2, BTBD2, BTBD3,

BTBD9, BTF3L4, BTG1, BTG2, BTK, BTN3A1, BTN3A2, BTNL8, BUB1, BUB1B, BUB3,

BZW2, C11orf24, C11orf65, C12orf29, C12orf4, C12orf57, C12orf75, C13orf46, C14orf119,

C14orf132, C14orf28, C15orf41, C16orf54, C16orf70, C16orf91, C17orf107, C17orf58,

C17orf67, C19orf12, C19orf25, C19orfi8, C19orf54, C19orf71, C19orf84, C1GALT1C1,

C1orf115, C1orf162, C1orf21, C1orf216, C1orf35, C1orf43, C1orf50, C1QA, C1QB, C1QC,

C2, C20orf194, C20orf204, C20orf27, C20orf96, C21orf91, C22orf19, C2CD5, C2orf49,

C3AR1, C4orf50, C5, C5orf15, C5orf22, C5orf24, C5orf30, C6orf136, C7orf26, C8orf58,

C9orf139, C9orf64, C9orf78, CA11, CA2, CA5B, CA8, CABIN1, CABP4, CACNA1H,

CACNA1I, CACNA2D2, CACNA2D4, CACNB1, CACNB2, CACNG8, CACTIN,

CALCOCO2, CALCRL, CALM2, CALU, CAMK1, CAMK1D, CAMK2G, CAMK2N1,

CAMK4, CAMP, CAP1, CAPG, CAPN1, CAPN10, CAPN15, CAPN2, CAPN3, CAPNS1,

CAPRIN1, CAPRIN2, CAPZA1, CAPZA2, CARD11, CARD16, CARD6, CARMIL2,

CARNMT1, CARNS1, CASD1, CASP1, CASP7, CASP8, CASP8AP2, CASS4, CAST,

CASTOR3, CAT, CATSPER1, CATSPER2, CATSPERB, CATSPERG, CBFA2T2, CBLB,

CBR1, CBR4, CBWD1, CBWD2, CBWD3, CBWD5, CBWD6, CBX4, CBX7, CC2D1B,

CCDC102A, CCDC12, CCDC120, CCDC136, CCDC138, CCDC141, CCDC146, CCDC149,

CCDC157, CCDC159, CCDC17, CCDC18, CCDC191, CCDC200, CCDC28A, CCDC43,

CCDC47, CCDC57, CCDC59, CCDC6, CCDC65, CCDC66, CCDC69, CCDC7, CCDC78,

CCDC80, CCDC84, CCDC88A, CCDC88B, CCDC88C, CCDC91, CCDC92, CCL28,

CCL3L1, CCL4, CCL4L2, CCL5, CCM2, CCN3, CCNA2, CCNB1, CCNB2, CCND2,

CCNJ, CCNL2, CCNT1, CCNYL1, CCR1, CCR2, CCR3, CCR7, CCR9, CCRL2, CCSAP,

CCSER2, CCT5, CCT6A, CCT8, CCZ1, CCZ1B, CD101, CD109, CD14, CD151, CD160,

CD163, CD163L1, CD164, CD180, CD1A, CD1D, CD2, CD200R1, CD209, CD226, CD244,

CD247, CD28, CD2BP2, CD300C, CD300LB, CD302, CD320, CD33, CD36, CD38, CD3D,

CD3E, CD3G, CD40LG, CD47, CD5, CD6, CD63, CD69, CD7, CD81, CD86, CD93, CD96,

CD99L2, CDAN1, CDC14A, CDC20, CDC25A, CDC25B, CDC37L1, CDC40, CDC42BPA,

CDC42BPB, CDC42BPG, CDC42EP1, CDC42EP3, CDC42SE1, CDC42SE2, CDC45,

CDC6, CDCA3, CDCA5, CDCA8, CDH24, CDHR1, CDHR3, CDIP1, CDK1, CDK11B,

CDK13, CDK17, CDK20, CDK2AP2, CDK5, CDK5RAP2, CDK9, CDKN1B, CDKN1C,

CDKN2AIP, CDKN2B, CDKN2C, CDT1, CEACAM1, CEACAM3, CEBPA, CEBPD,

CENPF, CENPN, CENPT, CENPU, CENPV, CEP104, CEP120, CEP126, CEP131, CEP135,

CEP152, CEP164, CEP170, CEP250, CEP290, CEP55, CEP68, CEP70, CEP78, CEP85L,

CERCAM, CERK, CERS4, CERS6, CES1, CES1P1, CFAP20, CFAP298, CFAP36,

CFAP410, CFAP44, CFAP45, CFH, CFP, CH25H, CHCHD1, CHCHD4, CHCHD6, CHD2,

CHD3, CHD6, CHD7, CHERP, CHI3L1, CHIC1, CHID1, CHKA, CHML, CHMP2B,

CHMP4A, CHP1, CHRFAM7A, CHRNA2, CHRNA7, CHRNE, CHST10, CHST12,

CHST13, CHST2, CHST7, CHST8, CHTF18, CHTF8, CIAO2A, CIC, CINP, CIP2A, CIRBP,

CISD1, CISH, CIT, CKAP5, CKB, CKS2, CLASRP, CLC, CLCF1, CLCN3, CLCN4,

CLCN5, CLCN6, CLCN7, CLDN15, CLDND2, CLEC12A, CLEC12B, CLEC18A,

CLEC18B, CLEC1B, CLEC2B, CLEC2D, CLEC4C, CLEC4D, CLEC40, CLEC5A,

CLEC6A, CLEC9A, CLHC1, CLIC1, CLIC3, CLIC4, CLIC5, CLK1, CLN5, CLN6, CLN8,

CLNS1A, CLPB, CLPTM1, CLPTM1L, CLSPN, CLSTN1, CLSTN3, CLTA, CLTC,

CLTCL1, CMAS, CMC1, CMC2, CMKLR1, CMPK1, CMPK2, CMTM2, CMTM4,

CMTM7, CNDP2, CNIH3, CNIH4, CNNM3, CNOT6L, CNP, CNPY4, CNTLN, CNTNAP1,

CNTNAP2, COA3, COA4, COA5, COA7, COASY, COG8, COL13A1, COL18A1, COL6A1,

COL6A2, COL8A2, COLGALT1, COLGALT2, COLQ, COMMD1, COMMD10,

COMMD9, COMT, COPA, COPB2, COPG1, COPG2, COPS2, COPS3, COPZ1, COQ10A,

COQ2, COQ5, CORO1C, CORO2B, CORO6, CORO7, COTL1, COX10, COX15, COX5A,

COX5B, COX6A1, COX6B1, COX7A2L, COX7B, COX8A, CPA3, CPEB3, CPEB4,

CPED1, CPM, CPNE2, CPNE8, CPSF1, CPSF2, CPSF3, CPVL, CRACR2A, CRAT,

CREB1, CREBRF, CREBZF, CREG1, CRELD1, CREM, CRIM1, CRIP1, CRIP2,

CRISPLD2, CRLF3, CRLS1, CROCC, CROCC2, CROT, CRTAP, CRTC2, CRY1,

CRYBG1, CRYBG2, CRYBG3, CRYM, CS, CSF1, CSF1R, CSF2RA, CSGALNACT2,

CSNK1A1, CSNK1E, CSNK1G2, CSNK2A1, CSNK2A3, CSPP1, CSRNP1, CST3, CST7,

CSTA, CSTB, CTAGE15, CTAGE4, CTAGE6, CTAGE8, CTBP1-AS, CTC1, CTDSPL2,

CTIF, CTNNA1, CTNNB1, CTNND1, CTNS, CTSA, CTSB, CTSC, CTSD, CTSF, CTSH,

CTSL, CTSO, CTSS, CTSW, CTSZ, CTTNBP2NL, CUBN, CUEDC2, CUL1, CUX1,

CWC15, CWF19L2, CXCL1, CXCL10, CXCL5, CXCL8, CXCR1, CXCR2, CXorf21,

CXorf38, CYB561D1, CYB561D2, CYB5R1, CYB5R3, CYBB, CYBRD1, CYC1, CYCS,

CYFIP1, CYFIP2, CYHR1, CYLD, CYP19A1, CYP1B1, CYP2D6, CYP2D7, CYP4F12,

CYSLTR2, CYTH1, CYTH2, DAAM2, DAB2, DAD1, DAGLA, DALRD3, DAP, DAPK2,

DARS2, DBF4, DBH, DBI, DBN1, DBP, DCAF15, DCAF16, DCLRE1A, DCPS, DCTN2,

DCTN4, DCTN5, DCTN6, DDB1, DDHD2, DDI2, DDIT4, DDOST, DDX17, DDX21,

DDX41, DDX49, DDX5, DDX6, DECR1, DEDD2, DEF6, DEFA1, DEFA1B, DEFA3,

DENND10, DENND11, DENND1A, DENND1C, DENND2D, DENND5B, DEPP1, DERA,

DERL3, DESI1, DGKE, DGKG, DGKK, DGKQ, DGKZ, DGUOK, DHCR24, DHFR,

DHRS11, DHRS13, DHRS3, DHRS4, DHRS4L2, DHX29, DHX32, DHX33, DHX57,

DHX9, DIAPH2, DIDO1, DIMT1, DIP2C, DLC1, DLD, DLEC1, DLEU7, DLG3, DLG4,

DLG5, DLGAP5, DMAC2, DMAP1, DMPK, DMWD, DMXL1, DNAAF2, DNAH10,

DNAH8, DNAJA1, DNAJA2, DNAJB1, DNAJB12, DNAJB13, DNAJB14, DNAJB9,

DNAJC13, DNAJC15, DNAJC24, DNAJC5, DNAJC6, DNAL1, DNASE1, DNASE1L1,

DNASE2, DNM1L, DNMT3A, DOCK1, DOCK2, DOCK7, DOCK8, DOCK9, DOK1,

DOK4, DOK6, DOLPP1, DOP1B, DPAGT1, DPEP2, DPEP3, DPP3, DPP9-AS1, DPYD,

DPYSL2, DRAM1, DRAM2, DRAXIN, DSE, DSTN, DTHD1, DTL, DTWD1, DTWD2,

DTX3, DTX3L, DUOX1, DUS3L, DUSP16, DUSP2, DUSP3, DUSP7, DUSP8, DVL1,

DVL2, DXO, DYM, DYNLL1, DYNLL2, DYNLT3, DYRK1A, DYRK1B, DYRK2,

DYRK3, DYSF, DZIP3, E2F1, E2F2, E2F3, E2F4, E2F6, E4F1, EAF1, EAF2, EBF4,

EBLN2, ECH1, ECHDC1, ECHDC2, ECHDC3, ECPAS, EDAR, EDEM2, EDEM3,

EDNRB, EED, EEF1AKNMT, EFHC2, EFHD2, EFNA5, EFTUD2, EGFL7, EGLN1, EGR3,

EHD4, EID3, EIF1, EIF1AD, EIF1AX, EIF2AK1, EIF2AK4, EIF2B1, EIF2B2, EIF2S1,

EIF2S3, EIF2S3B, EIF3I, EIF3M, EIF4E2, EIF4EBP1, EIF4G1, EIF4H, EIF5A2, EIF5AL1,

EIF6, ELAVL1, ELK4, ELL2, ELMO2, ELMO3, ELOB, ELOC, ELOVL1, ELP2, EMC7,

EMC8, EMID1, EMILIN2, EML3, EML4, EMP3, ENKUR, ENO1, ENO2, ENO3, ENOX2,

ENPP3, ENPP5, ENY2, EOMES, EPB41L3, EPB41L4A, EPC1, EPDR1, EPHA4, EPHB1,

EPHB2, EPHB4, EPHX2, EPN2, EPPK1, EPS8, EPS8L2, EPSTI1, ERAL1, ERBB2,

ERCC6L2, ERCC8, EREG, ERFL, ERG28, ERH, ERI2, ERLIN1, ERLIN2, ERMAP, ERN1,

ERO1A, ERO1B, ERP27, ERP44, ESCO1, ESD, ESF1, ESPL1, ESR1, ESR2, ESRP2,

ESYT2, ETAA1, ETF1, ETFA, ETFDH, ETHE1, ETS1, ETS2, EVI2A, EVI2B, EVI5, EVL,

EWSR1, EXD3, EXOC4, EXOC6, EXOC8, EXOSC1, EXOSC4, EXOSC6, EXPH5, EXT1,

EXT2, EZH2, F2RL2, F5, FABP5, FADS1, FAH, FAIM, FAM102A, FAM107B, FAM118B,

FAM122B, FAM131B, FAM151B, FAM153B, FAM156A, FAM156B, FAM160B2,

FAM169A, FAM172A, FAM174A, FAM177A1, FAM193B, FAM199X, FAM200B,

FAM20A, FAM20C, FAM214A, FAM229A, FAM241A, FAM32A, FAM43A, FAM72A,

FAM72B, FAM72C, FAM72D, FAM76A, FAM76B, FAM83A, FAM89A, FAM98C,

FANCA, FANCI, FAT2, FAT4, FAXDC2, FBF1, FBL, FBLN7, FBN2, FBP1, FBRSL1,

FBXL13, FBXL14, FBXL15, FBXL16, FBXL17, FBXL5, FBXL8, FBX03, FBXO31,

FBXO32, FBXO33, FBXO45, FBXO5, FBXO6, FCER1A, FCGR1A, FCGR1B, FCGR3A,

FCGR3B, FCGRT, FCHO1, FCHSD1, FCMR, FCN1, FCN2, FCRL3, FCRL5, FCRL6,

FEN1, FERMT3, FES, FEZ1, FEZ2, FFAR2, FGD1, FGD2, FGD3, FGD4, FGD6, FGFBP2,

FGFR1OP, FGFRL1, FGR, FH, FHDC1, FHL1, FIBP, FIG4, FIS1, FKBP15, FKBP1A,

FKBP1B, FKBP5, FKBP9, FLT1, FLT3, FLVCR2, FLYWCH1, FMN1, FMNL3, FMO5,

FN1, FNBP1L, FNDC9, FNIP2, FOSB, FOXD2-AS1, FOXK1, FOXM1, FOXN2, FOXO1,

FOXP1, FOXP3, FOXP4, FPGT, FPR3, FRMD3, FRMD4B, FRMD8, FRMPD3, FRRS1,

FSCN1, FSTL3, FTL, FUCA2, FURIN, FUT11, FXYD6, FYB1, FYN, FZD1, FZD2, FZD3,

FZD5, FZD7, GOS2, G2E3, G6PC3, G6PD, GAA, GABRR2, GADD45B, GAL3ST4,

GALK1, GALK2, GALNT11, GALNT12, GALNT2, GALNT3, GALNT7, GAN, GANC,

GAPDH, GARS1, GART, GAS2L3, GAS6, GASK1B, GATA2, GATA3, GATAD2A,

GATAD2B, GATB, GBA, GBE1, GBGT1, GCAT, GCC1, GCC2, GCNT1, GCNT4,

GCSAM, GCSAML, GDAP1, GDE1, GDF11, GDI2, GDPD3, GEMIN7, GEN1, GET3,

GFI1, GFM1, GFM2, GFRA2, GGACT, GGCT, GGH, GGT7, GHITM, GHRL, GIGYF1,

GIMAP5, GIMAP7, GIMAP8, GINS2, GIPC1, GIPR, GK5, GKAP1, GLB1, GLB1L2,

GLCCI1, GLCE, GLDC, GLDN, GLE1, GLI1, GLI4, GLIPR1, GLMP, GLO1, GLRX,

GLRX3, GLS, GLTP, GLUD1, GLUD2, GM2A, GMCL1, GMDS, GMPPA, GMPR,

GNA15, GNAL, GNAO1, GNB5, GNG2, GNG5, GNL2, GNLY, GNPAT, GNPDA1,

GNPTAB, GNRH1, GNS, GOLGA4, GOLGA5, GOLGA6L10, GOLGA6L3, GOLGA6L4,

GOLGA6L9, GOLGA7B, GOLGA8A, GOLGA8B, GOLT1B, GORASP1, GOSR1, GOT2,

GPA33, GPALPP1, GPAT2, GPBAR1, GPD2, GPER1, GPI, GPM6B, GPN3, GPNMB,

GPR146, GPR153, GPR155, GPR171, GPR174, GPR18, GPR183, GPR3, GPR34, GPR68,

GPR75, GPRC5D, GPSM3, GPT2, GPX1, GPX4, GRAMD1C, GRB10, GRB2, GRHPR,

GRIN3B, GRINA, GRK2, GRK3, GRK5, GRM2, GRN, GSR, GSTM1, GSTM2, GSTM4,

GSTO1, GSTZ1, GTF2B, GTF2F2, GTF2H1, GTF3C6, GTPBP4, GTPBP8, GTSE1, GTSF1,

GUF1, GUSB, GXYLT1, GYG1, GYPE, GYS1, GZMA, GZMB, GZMH, GZMK, GZMM,

H1-0, H1-10, H1-4, H2AJ, H2AZ2, H2BC17, H2BC5, H3-3B, H4-16, H4C8, HAAO,

HABP4, HADHA, HADHB, HAGHL, HAT1, HAUS1, HAUS4, HAUS5, HAVCR2,

HCAR2, HCAR3, HCCS, HCN2, HCN3, HDAC8, HDAC9, HDC, HDGF, HDHD5, HDLBP,

HEATR4, HEATR9, HEBP1, HECTD2, HEG1, HELB, HERC1, HES4, HEXB, HEXD,

HFE, HGF, HIBADH, HIGD1A, HIGD2A, HINT2, HIP1R, HIRIP3, HIVEP2, HJURP, HK1,

HK2, HK3, HKDC1, HLA-DQA2, HLA-DRA, HLA-E, HLA-F, HLX, HM13, HMBS,

HMCES, HMGB2, HMGB3, HMGCL, HMGXB4, HMOX1, HMOX2, HNMT, HNRNPA0,

HNRNPAB, HNRNPDL, HNRNPF, HNRNPK, HOMEZ, HOPX, HOXB2, HOXB3,

HOXB4, HP, HPCAL1, HPCAL4, HPR, HPRT1, HPS5, HPSE, HRH4, HS1BP3,

HS3ST3B1, HSBP1, HSD17B10, HSD17B12, HSD17B4, HSF2, HSF4, HSPA4, HSPH1,

HTRA1, HUS1, HVCN1, HYAL2, IAH1, IBTK, ICA1, ID2, ID3, IDE, IDH1, IDH2, IDH3G,

IDS, IER2, IER5, IFH6, IFI27L1, IFI27L2, IFI35, IFI44, IFI6, IFIT5, IFITM3, IFNAR1,

IFNG, IFNGR1, IFNGR2, IFT122, IFT80, IGF1R, IGF2BP3, IGFBP2, IGFBP3, IGFBP7,

IGIP, IGLL5, IK, IKBKE, IKZF1, IKZF2, IKZF3, IKZF4, IL11RA, IL12RB1, IL15, IL15RA,

IL17RA, IL18, IL18BP, IL1B, IL1R2, IL21R, IL24, IL2RA, IL2RB, IL2RG, IL32, IL3RA,

IL5RA, IL7R, IMMT, IMPA2, IMPACT, IMPAD1, ING5, INIP, INKA1, INO80C, INO80E,

INPP1, INPP4A, INPP4B, INPP5D, INPP5E, INPPL1, INSR, INTS6, IP6K2, IPO7, IPP,

IQCN, IQSEC3, IRAK1, IRAK1BP1, IRAK2, IRAK3, IRF2BP1, IRF3, IRF5, IRF8,

ISG20L2, ISYNA1, ITFG1, ITGA1, ITGA7, ITGAM, ITGB2, ITGB7, ITGB8, ITK, ITM2A,

ITM2C, ITPKB, ITPKC, ITPR3, ITPRID2, ITPRIPL1, ITPRIPL2, ITSN1, JADE1, JADE2,

JADE3, JAG1, JAGN1, JAK1, JAK2, JAKMIP1, JAKMIP2, JAM3, JCHAIN, JDP2,

JKAMP, JMY, JPH4, JUN, JUNB, JUND, JUP, KANK2, KANK3, KANSL1, KANSL2,

KARS1, KAT6A, KAT6B, KATNBL1, KBTBD11, KBTBD4, KBTBD6, KCNA3, KCNC4,

KCND3, KCNE1, KCNE1B, KCNE3, KCNK13, KCNMA1, KCNMB1, KCNQ1, KCTD12,

KCTD13, KCTD3, KCTD5, KDELR1, KDELR2, KDM1B, KDM2A, KDM3A, KDM5A,

KDM6B, KEL, KIAA0100, KIAA0355, KIAA0586, KIAA0895L, KIAA0930, KIAA1143,

KIAA1257, KIAA1324, KIAA1328, KIAA1522, KIAA1671, KIAA1958, KIAA2026, KIF11,

KIF14, KIF15, KIF18A, KIF18B, KIF19, KIF20B, KIF21A, KIF21B, KIF22, KIF23,

KIF26A, KIF2A, KIF2C, KIF3A, KIF4A, KIF5C, KIFC1, KIFC2, KIFC3, KIR2DL1,

KIR2DL3, KIR2DS4, KIR3DL1, KIR3DL2, KIZ, KLC2, KLC4, KLF12, KLF16, KLF2,

KLF5, KLHDC2, KLHDC4, KLHDC8A, KLHL11, KLHL12, KLHL14, KLHL15, KLHL25,

KLHL28, KLHL3, KLHL42, KLHL8, KLRB1, KLRC1, KLRC4, KLRD1, KLRF1, KLRG1,

KMO, KMT2A, KMT2B, KMT2E, KMT5C, KNL1, KNSTRN, KPNA5, KPTN, KRBA1,

KRI1, KRR1, KRT23, KRT72, KRT73, KRTCAP3, KY, L3MBTL3, LACC1, LACTB,

LAIR1, LAMA2, LAMB2, LAMC1, LAMTOR2, LAMTOR4, LAMTOR5, LAP3,

LAPTM4B, LAT, LAT2, LAX1, LBH, LCK, LCNL1, LCORL, LCP1, LDB1, LDHA, LDLR,

LDLRAD3, LDOC1, LEMD3, LENG1, LENG8, LEPROT, LGALS1, LGALS12, LGALS3,

LGALS8, LGALS9, LGALS9B, LGR6, LHFPL2, LHFPL6, LIG1, LIG4, LILRA4, LILRA5,

LILRA6, LILRB4, LILRB5, LIM2, LIMD2, LIN54, LIN7C, LINC01410, LINC01579,

LINGO1, LIPA, LIPE, LITAF, LIXIL, LLGL1, LLGL2, LMAN2, LMBR1, LMBRIL,

LMF1, LMF2, LMNA, LMNB1, LMO2, LMO7, LMTK3, LNPEP, LONP2, LONRF3,

LOXHD1, LOXL2, LPCAT1, LPCAT3, LPCAT4, LPL, LPXN, LRATD2, LRFN1, LRFN3,

LRIF1, LRIG1, LRMDA, LRP1, LRP2BP, LRP3, LRP8, LRPAP1, LRRC14, LRRC23,

LRRC37B, LRRC41, LRRC45, LRRC56, LRRC59, LRRC8D, LRRK1, LRWD1, LSM10,

LSM6, LSS, LTA4H, LTB, LTBP3, LTBP4, LTBR, LTF, LUC7L, LUC7L3, LY6G5C,

LY75, LY86, LY9, LYRM7, LYSMD4, LYZ, LZTFL1, LZTS3, M1AP, M6PR,

MACROH2A1, MACROH2A2, MAEA, MAF, MAFB, MAFG, MAGED2, MAGEE1,

MAGEF1, MALAT1, MAML3, MAN1A2, MAN1B1, MAN1C1, MAN2A2, MAN2B1,

MANBA, MAOA, MAOB, MAP10, MAP11, MAP1LC3A, MAP2K1, MAP2K6, MAP3K10,

MAP3K12, MAP3K20, MAP3K21, MAP3K6, MAP3K7CL, MAP3K9, MAP4K1, MAP4K2,

MAP9, MAPK13, MAPK14, MAPK3, MAPK6, MAPK8, MAPKAPK3, MAPKBP1,

MAPRE1, MAPRE2, MARC1, MARCHF1, MARCHF2, MARCHF5, MARCHF9,

MARCKSL1, MARCO, MARS2, MARVELD1, MASP2, MAST3, MAT2A, MATK,

MATR3, MBD5, MBLAC2, MBOAT1, MBP, MBTPS2, MC1R, MCEMP1, MCF2L,

MCF2L2, MCFD2, MCM10, MCM2, MCM3AP-AS1, MCM4, MCMBP, MCOLN1,

MCR1P1, MCTP1, MCTS1, MDGA1, MDH1, MDH2, MDS2, ME1, ME2, MECP2, MED1,

MED10, MED15, MED17, MED19, MED20, MED21, MED30, MED31, MED6, MED8,

MEF2A, MEF2C, MEGF6, MELK, MELTF, MERTK, MESD, METRN, METTL14,

METTL22, METTL4, METTL7A, METTL9, MEX3C, MFGE8, MFSD1, MFSD14B,

MFSD2B, MFSD8, MGAT1, MGAT4A, MGME1, MGST1, MGST2, MGST3, MIB2,

MICA, MICAL2, MICB, MICU1, MID2, MIEF2, MIGA1, MIGA2, MILR1, MINDY2,

MINK1, MIOS, MIR23A, MIS18BP1, MITF, MKI67, MKKS, MLANA, MLC1, MLEC,

MLF1, MLKL, MLLT11, MLLT3, MLLT6, MLX, MLXIP, MME, MMP14, MMP17,

MMP19, MMP23B, MMP24, MMP28, MOAP1, MOB1B, MOB3C, MORC4, MORN3,

MPC1, MPDU1, MPEG1, MPHOSPH10, MPHOSPH8, MPND, MPP1, MPP6, MPRIP,

MPV17, MPV17L2, MPZL3, MR1, MRC1, MRI1, MRM2, MROH6, MRPL10, MRPL12,

MRPL13, MRPL15, MRPL16, MRPL18, MRPL19, MRPL23, MRPL28, MRPL3, MRPL33,

MRPL36, MRPL37, MRPL41, MRPL47, MRPL51, MRPL55, MRPL57, MRPL58, MRPL9,

MRPS10, MRPS15, MRPS16, MRPS18A, MRPS2, MRPS23, MRPS5, MRPS6, MRPS7,

MRRF, MRTFB, MS4A2, MS4A3, MS4A4A, MS4A4E, MS4A6A, MSANTD2, MSANTD3,

MSANTD4, MSH3, MSL1, MSR1, MSRB2, MT1E, MT1F, MT1X, MT2A, MT-ATP6,

MTCH2, MTERF2, MTF1, MTFR1, MTHFD1, MTHFD2, MTHFR, MTI F3, MTMR10,

MTMR14, MTMR6, MT-ND1, MT-ND2, MT-ND5, MT-ND6, MTPAP, MTR, MTX3,

MUC12, MUC16, MUC6, MUTYH, MVD, MVK, MX1, MXD3, MYBL1, MYBL2,

MYCBP, MYCT1, MYD88, MYDGF, MYEF2, MYH10, MYH11, MYH7B, MYL5, MYLIP,

MYO10, MYO1E, MY06, MYO7A, MYO9A, MYOF, MYPOP, MYZAP, MZB1, MZT1,

N4BP2L2, NAA20, NAA30, NAA80, NAALAD2, NACA2, NACC2, NAE1, NAGA,

NAGK, NAGLU, NAIP, NANS, NAP1L1, NAP1L2, NAP1L3, NAP1L5, NAPA, NAT8B,

NATD1, NAV1, NBEA, NBL1, NBPF3, NBR1, NCALD, NCAM1, NCAPG, NCAPH,

NCAPH2, NCBP2AS2, NCEH1, NCF2, NCK2, NCKAP1L, NCOA3, NCR1, NCR3,

NCR3LG1, NCSTN, NDRG2, NDUFA1, NDUFA11, NDUFA12, NDUFA2, NDUFA3,

NDUFA4, NDUFA6, NDUFA8, NDUFA9, NDUFAB1, NDUFAF1, NDUFAF3, NDUFB1,

NDUFB10, NDUFB3, NDUFB4, NDUFB5, NDUFB9, NDUFC1, NDUFS1, NDUFS2,

NDUFS3, NDUFS4, NDUFS5, NDUFS6, NDUFS7, NDUFV3, NECTIN1, NECTIN2,

NEDD4, NEIL1, NEK3, NEK4, NEK6, NEK7, NELL2, NEMF, NEO1, NET1, NETO2,

NEURL1, NFATC2, NFATC3, NFE2L3, NFE4, NFIA, NFIL3, NFS1, NHP2, NHSL1,

NIBAN2, NINL, NIP7, NIPA1, NIPA2, NIPAL2, NIPAL3, NIPSNAP2, NIPSNAP3A,

NKD1, NKG7, NKIRAS2, NLGN2, NLGN3, NLN, NLRC3, NLRC4, NLRP12, NLRP3,

NLRP6, NME1, NME2, NMNAT1, NMT2, NMUR1, NOCT, NOG, NOL10, NOL12, NOL3,

NOL4L, NOP10, NOP53, NOSIP, NOTCH1, NOTCH4, NOXA1, NPAT, NPC2, NPL,

NPR2, NPRL2, NPTXR, NR3C2, NREP, NRF1, NRG1, NRIP1, NRM, NRROS, NSDHL,

NSG1, NSMCE3, NSMF, NSUN2, NT5DC2, NT5DC3, NTRK1, NTSR1, NUAK1, NUBP1,

NUBP2, NUCB1, NUDT16, NUDT6, NUMA1, NUMBL, NUP37, NUP43, NUP58, NUP93,

NUSAP1, NUTF2, NUTM2F, NUTM2G, OAF, OAS1, OAS2, OAS3, OASL, OBSCN,

OCIAD2, OCLN, OCRL, ODF2L, OFD1, OGDH, OGFR, OLAH, OLFML2A, OLIG1,

OPA1, OPLAH, OPN3, OR2A4, OR2A7, OR2B6, ORAI1, ORAI2, ORAI3, ORC1, ORC2,

ORC5, ORMDL2, ORMDL3, OS9, OSBPL11, OSBPL5, OSBPL7, OSM, OSTC, OTOF,

OTUD3, OTUD7B, OTULINL, OXA1L, OXR1, P2RX4, P2RX7, P2RY1, P2RY10,

P2RY14, P2RY8, P3H4, P4HA1, P4HB, PABPC3, PACC1, PACS1, PACSIN1, PADI2,

PAFAH2, PAIP2B, PAK1IP1, PALLD, PANX1, PAPOLG, PAPSS1, PAQR4, PARD6B,

PARP10, PARP15, PARP16, PARP4, PARVG, PASK, PATJ, PATL2, PAX8, PAXX, PBX4,

PBXIP1, PCCB, PCDH9, PCED1A, PCF11, PCK2, PCMT1, PCNA, PCNX2, PCNX3,

PCOLCE, PCSK7, PCSK9, PCTP, PCYT2, PDCD10, PDCD4, PDCD6IP, PDCD7, PDE12,

PDE1B, PDE2A, PDE3B, PDE7A, PDGFC, PDGFD, PDHB, PDIA3, PDIA5, PDIA6, PDK2,

PDK4, PDP2, PDRG1, PDSS1, PDXK, PDZD2, PDZD4, PELP1, PEPD, PER1, PER3,

PET100, PEX1, PEX11G, PFDN6, PFKFB3, PFN2, PGA3, PGAM1, PGAM4, PGAP3,

PGBD2, PGD, PGGHG, PGK1, PGLS, PGLYRP1, PGM2, PGM2L1, PHAX, PHC1,

PHETA2, PHF1, PHF10, PHF13, PHF19, PHF20, PHKB, PHLDB2, PHLDB3, PHLPP2,

PHRF1, PI16, PI3, PICK1, PIGF, PIGL, PIGN, PIGS, PIK3C2B, PIK3CB, PIK3CD, PILRB,

PIM1, PIN1, PINK1, PIP5K1B, PITPNC1, PITPNM1, PITPNM2, PITRM1, PIWIL4, PJA1,

PJVK, PKIA, PKM, PKMYT1, PKN1, PKNOX1, PKP4, PLA2G12A, PLA2G15, PLA2G4A,

PLA2G6, PLA2G7, PLAA, PLAAT3, PLAU, PLBD1, PLCB3, PLCD1, PLCD3, PLCH2,

PLCL1, PLCXD2, PLD1, PLD3, PLD4, PLEKHA1, PLEKHA5, PLEKHB1, PLEKHB2,

PLEKHF1, PLEKHG2, PLEKHG3, PLEKHG5, PLEKHH2, PLEKHM2, PLGLB1, PLIN2,

PLIN3, PLK1, PLLP, PLOD1, PLP2, PLPBP, PLSCR1, PLXDC1, PLXDC2, PLXNA1,

PLXNA3, PLXNA4, PMAIP1, PMEL, PMVK, PNISR, PNKD, PNKP, PNN, PNP, PNPO,

PNRC1, PODN, PODXL, POFUT1, POFUT2, POLD3, POLDIP2, POLDIP3, POLE4,

POLQ, POLR2D, POLR2E, POLR2G, POLR2M, POLR3G, POLRMT, POMP, PON2,

POP7, POTEF, POTEI, POTEJ, POU2AF1, POU6F1, PPARD, PPARG, PPARGC1B,

PPCDC, PPCS, PPFIA3, PPFIBP2, PPIA, PPIB, PPIG, PPL, PPM1K, PPM1N, PPOX,

PPPICC, PPP1R12C, PPP1R13B, PPP1R15A, PPP1R16B, PPP1R2, PPP1R26, PPP1R35,

PPP1R37, PPP1R3D, PPP1R8, PPP2CB, PPP2R2B, PPP2R2D, PPP2R3B, PPP2R5C,

PPP3CC, PPP6C, PPT1, PRAF2, PRAG1, PRAM1, PRCP, PRDM1, PRDM11, PRDM8,

PRDX1, PRDX3, PRDX4, PRDX5, PRDX6, PREB, PRELID1, PREP, PRF1, PRKAA1,

PRKAB1, PRKACA, PRKACB, PRKAG1, PRKCH, PRKCQ, PRKCZ, PRKD2, PRKRIP1,

PRMT2, PRMT5, PROSER1, PRPF38A, PRPF38B, PRPF39, PRPF4, PRPF40B, PRR11,

PRR12, PRR14, PRR5, PRR5L, PRR7, PRRC2C, PRRG4, PRRT3, PRRT4, PRSS23,

PRSS33, PRSS53, PRSS57, PSAP, PSD, PSD3, PSD4, PSEN1, PSEN2, PSIP1, PSMA4,

PSMA5, PSMA6, PSMA7, PSMB1, PSMB2, PSMB3, PSMB5, PSMB6, PSMB7, PSMC1,

PSMD1, PSMD10, PSMD11, PSMD14, PSMD2, PSMD3, PSMD4, PSMD5, PSMD8,

PSMG1, PSMG2, PSPH, PSTK, PSTPIP2, PTBP1, PTBP2, PTCD1, PTCH1, PTDSS1,

PTGDR, PTGDR2, PTGDS, PTGER2, PTGER4, PTGFRN, PTGS2, PTK7, PTOV1,

PTP4A3, PTPA, PTPMT1, PTPN11, PTPN2, PTPN4, PTPN7, PTPN9, PTPRO, PTPRS,

PTRHD1, PTS, PTTG1, PTTG1IP, PUDP, PUM2, PURA, PUS7L, PVR, PXK, PXN,

PYCARD, PYGM, PYGO2, PYHIN1, PYM1, PZP, QRICH2, QSER1, QSOX1, QTRT2,

R3HDM1, RAB10, RAB11FIP3, RAB11FIP4, RAB11FIP5, RAB13, RAB15, RAB20,

RAB22A, RAB32, RAB34, RAB37, RAB39A, RAB39B, RAB43, RAB44, RAB6D, RAB7A,

RAB8A, RABEP2, RABGAP1L, RABL2B, RAC1, RACGAP1, RAD1, RAD23B,

RAD51AP1, RAD52, RAD9A, RADX, RALA, RALGDS, RAN, RANBP6, RAP2A, RAP2C,

RAPGEF5, RAPGEF6, RAPH1, RARG, RASA2, RASA3, RASAL3, RASGEF1B,

RASGRF2, RASGRP1, RASGRP2, RASSF1, RASSF2, RASSF5, RASSF7, RB1, RBBP6,

RBBP8, RBKS, RBL2, RBM14, RBM14-RBM4, RBM25, RBM34, RBM4, RBM45,

RBM48, RBMS2, RBP7, RBPMS, RBX1, RCAN1, RCAN3, RCBTB2, RCC1, RCC2, RCE1,

RCN2, RDH13, RDH14, RDH5, RDX, RECK, REEP4, REEP6, REM2, RENBP, RESF1,

REST, RETREG1, RETREG3, REX1BD, REXO1, RFC2, RFTN1, RFX1, RFXAP, RGL4,

RGMB, RGPD5, RGPD6, RGS1, RGS14, RGS16, RGS3, RGS6, RGS9, RHAG, RHBDD1,

RHBDF2, RHCE, RHEB, RHEBL1, RHO, RHOA, RHOBTB3, RHOC, RHOF, RHOQ,

RHOT1, RHOT2, RHOU, RHPN1, RIC1, RIC8B, RILPL1, RILPL2, RIMS3, RIN1, RIN2,

RINL, RIOK3, RIOX1, RMI1, RNASE1, RNASE2, RNASE3, RNASE6, RNF10, RNF103,

RNF126, RNF130, RNF135, RNF139, RNF144A, RNF144B, RNF165, RNF167, RNF175,

RNF181, RNF182, RNF216, RNF217, RNF41, RNF43, RNF44, RNF7, RNH1, RNPEP,

ROGDI, ROMO1, RORA, RPE, RPF1, RPGR, RPH3A, RPL13A, RPL17, RPL22L1,

RPL26L1, RPL3, RPN1, RPN2, RPRD2, RPS14, RPS27A, RPS27L, RPS29, RPS3, RPS5,

RPS6KA5, RPS6KC1, RPTOR, RPUSD2, RRAGA, RRAS, RRAS2, RRM2, RRP15,

RSAD1, RSAD2, RSBN1, RSBN1L, RSF1, RSPRY1, RSRP1, RTL6, RTL8C, RTN4,

RTRAF, RTTN, RUFY3, RUFY4, RUNDC1, RUNX3, RUSC2, RXFP2, RXFP4, RXRA,

RYK, RYR3, S100A10, S100A11, S100A12, S100A4, S100A6, S100A8, S100A9, S1PR1,

S1PR3, S1PR4, S1PR5, SACMIL, SAFB2, SALL2, SAMD10, SAMD3, SAMHD1,

SAMSN1, SAP30, SAP30L, SAPCD2, SAR1B, SARDH, SARM1, SASH1, SASS6, SAT2,

SBDS, SBF1, SBF2, SBK1, SCAI, SCAMP2, SCAP, SCAPER, SCARB1, SCARB2,

SCCPDH, SCD, SCD5, SCFD1, SCIMP, SCML4, SCNM1, SCP2, SCPEP1, SCR1B, SDC1,

SDC3, SDC4, SDCBP, SDCCAG8, SDE2, SDHB, SDHC, SDHD, SDK2, SEC11A, SEC23B,

SEC23IP, SEC24A, SEC24D, SEC31A, SEC61A1, SEC61A2, SEC61B, SEC61G,

SELENOF, SELENOM, SELENON, SELL, SEMA4A, SEMA4C, SEMA4F, SEMA6A,

SEMA6B, SEMA6C, SENP7, SEPHS2, SEPTIN1, SEPTIN10, SEPTIN2, SEPTIN4,

SEPTIN6, SEPTIN7, SEPTIN8, SEPTIN9, SERF1A, SERF2, SERHL2, SERP1, SERPINB1,

SERPINB10, SERPINB2, SERPINB8, SERPINB9, SERPINE1, SERPING1, SESTD1,

SETBP1, SETD1A, SETD1B, SETD3, SETD6, SETD7, SEZ6L, SF1, SF3A2, SF3B3, SFH,

SFMBT1, SFMBT2, SFSWAP, SFT2D1, SFXN4, SFXN5, SGCD, SGF29, SGIP1, SGK3,

SGMS1, SGMS2, SGO1, SGPP1, SGSH, SGSM1, SH2B1, SH2D1B, SH2D2A, SH2D3A,

SH2D3C, SH2D4A, SH3BGRL, SH3BGRL3, SH3BP1, SH3BP4, SH3PXD2B, SH3RF1,

SH3TC1, SH3YL1, SHCBP1, SHISA7, SHISAL2A, SHLD2, SHMT1, SHMT2, SHROOM1,

SHTN1, SIAE, SIAH2, SIDT1, SIGIRR, SIGLEC1, SIGLEC11, SIGLEC12, SIGLEC15,

SIGLEC16, SIGLEC9, SIKE1, SIL1, SIN3A, SIPA1, SIRPA, SIRPB2, SIRPD, SIVA1,

SKAP1, SKAP2, SKI, SKIV2L, SLAIN1, SLAMF1, SLAMF6, SLC11A1, SLC11A2,

SLC12A2, SLC13A4, SLC16A1, SLC16A11, SLC16A5, SLC16A6, SLC16A8, SLC19A2,

SLC1A3, SLC1A5, SLC1A7, SLC22A15, SLC22A16, SLC24A4, SLC25A11, SLC25A24,

SLC25A26, SLC25A29, SLC25A30, SLC25A38, SLC25A40, SLC25A42, SLC25A43,

SLC25A45, SLC25A5, SLC25A53, SLC25A6, SLC26A11, SLC26A6, SLC27A1, SLC27A3,

SLC29A2, SLC29A3, SLC2A4, SLC2A4RG, SLC2A5, SLC2A9, SLC30A1, SLC30A4,

SLC31A1, SLC31A2, SLC33A1, SLC35A1, SLC35A3, SLC35A5, SLC35B1, SLC35B3,

SLC35D1, SLC35D2, SLC35E2B, SLC35F6, SLC36A1, SLC36A4, SLC37A2, SLC38A1,

SLC38A2, SLC38A5, SLC38A7, SLC39A1, SLC39A11, SLC39A13, SLC39A7, SLC39A9,

SLC3A2, SLC41A1, SLC43A1, SLC43A3, SLC44A1, SLC45A3, SLC45A4, SLC46A2,

SLC49A3, SLC4A11, SLC4A2, SLC4A4, SLC4A5, SLC4A7, SLC50A1, SLC5A3,

SLC6A12, SLC6A16, SLC7A7, SLC9A3R1, SLC9A9, SLC9B2, SLCO4A1, SLF1, SLFN11,

SLFN12, SLFN12L, SLIRP, SLITRK4, SLPI, SMAD1, SMAD3, SMAD4, SMAD7,

SMARCAL1, SMARCD3, SMCO4, SMG7, SMIM10L2A, SMIM12, SMIM15, SMIM24,

SMIM27, SMIM3, SMIM4, SMPD3, SMS, SMTN, SMU1, SMURF2, SMYD3, SMYD4,

SNAPIN, SND1, SNF8, SNPH, SNRK, SNRNP25, SNRNP48, SNRNP70, SNRPB2,

SNRPC, SNRPD2, SNRPD3, SNRPG, SNTA1, SNTB1, SNUPN, SNURF, SNX1, SNX10,

SNX12, SNX17, SNX19, SNX2, SNX25, SNX29, SNX3, SNX30, SNX33, SNX5, SNX8,

SOAT1, SOCS2, SOCS6, SORBS3, SORD, SORL1, SORT1, SOWAHC, SOWAHD,

SOX12, SOX13, SOX8, SP4, SPAG16, SPAG5, SPATA33, SPATA5, SPATS2, SPATS2L,

SPCS1, SPCS2, SPDYE3, SPECC1, SPEF2, SPG21, SPG7, SPHK1, SPIDR, SPINDOC,

SPINT1, SPINT2, SPN, SPNS3, SPOCK1, SPOCK2, SPON1, SPON2, SPOUT1, SPR,

SPRN, SPRY2, SPRYD3, SPSB1, SPSB2, SPTAN1, SPTB, SPTBN5, SPTLC1, SPTLC2,

SPTSSA, SQLE, SQOR, SRA1, SRD5A1, SRD5A3, SRGAP1, SRGAP2, SRGAP2B,

SRGAP2C, SRGAP3, SRP54, SRP72, SRP9, SRPK2, SRPK3, SRPRA, SRRT, SRSF1,

SRSF11, SRSF5, SRSF7, SSBP3, SSBP4, SSR1, SSR3, SSR4, ST14, ST3GAL3, ST3GAL4,

ST6GAL1, ST6GALNAC3, ST6GALNAC4, ST8SIA1, ST8SIA6, STAB1, STAC3,

STAG3L3, STARD13, STARD3NL, STARD8, STARD9, STAT1, STAT2, STAT4,

STAT5B, STEAP3, STIL, STIM2, STING1, STK10, STK26, STK3, STK39, STMN3,

STMP1, STON1, STS, STT3A, STT3B, STX10, STX12, STX4, STYXL1, SUCLA2,

SUCLG1, SULT1A1, SULT1A2, SUMF1, SUMO3, SUN2, SUOX, SURF4, SUSD3, SV2A,

SVIP, SWAP70, SYDE2, SYK, SYN2, SYNE1, SYNE2, SYNE3, SYNGAP1, SYNGR2,

SYNJ2, SYNM, SYNRG, SYTL1, SYTL2, SYTL3, TAF10, TAF12, TAF3, TAF4, TAF7,

TAF9, TAGAP, TAGLN2, TAL1, TALDO1, TANC2, TAOK2, TARS1, TARS3, TBC1D1,

TBC1D10A, TBC1D10C, TBC1D13, TBC1D16, TBC1D17, TBC1D19, TBC1D2,

TBC1D25, TBC1D31, TBC1D3B, TBC1D3D, TBC1D3F, TBC1D3H, TBC1D3I, TBC1D3L,

TBC1D4, TBC1D5, TBC1D8, TBCC, TBKBP1, TBL2, TBX21, TBXAS1, TC2N, TCAF1,

TCAF2, TCAIM, TCEA2, TCEA3, TCEAL4, TCF20, TCF7, TCN1, TCN2, TCOF1,

TCP11L2, TCTEX1D4, TCTN2, TDRD9, TEC, TECR, TEDC1, TEF, TEFM, TENT4B,

TESPA1, TET3, TEX2, TEX52, TFCP2, TFDP1, TFDP2, TFEC, TFG, TFRC, TGFB3,

TGFBR1, TGFBR2, TGFBR3, TGM2, THAP1, THAP5, THAP7, THBS1, THBS4, THEM4,

THG1L, THOC6, THOC7, THUMPD1, THUMPD2, THUMPD3, TIAM2, TIGAR, TIGD1,

TIGD2, TIGD3, TIGD5, TIMM13, TIMM23, TIMM8B, TIMMDC1, TIMP1, TIMP2,

TIMP4, TJP3, TK1, TK2, TKFC, TKT, TKTL1, TLE2, TLN2, TLR2, TLR4, TLR5, TM2D3,

TM7SF3, TM9SF2, TM9SF4, TMA16, TMBIM6, TMC6, TMC8, TMCC2, TMCC3,

TMCO1, TMED8, TMED9, TMEM106A, TMEM11, TMEM115, TMEM116, TMEM120B,

TMEM121B, TMEM131, TMEM134, TMEM144, TMEM147, TMEM14A, TMEM14C,

TMEM150B, TMEM161B, TMEM165, TMEM167A, TMEM170B, TMEM179B,

TMEM181, TMEM184A, TMEM184B, TMEM185B, TMEM204, TMEM205, TMEM208,

TMEM218, TMEM219, TMEM222, TMEM230, TMEM243, TMEM25, TMEM254,

TMEM255A, TMEM255B, TMEM258, TMEM259, TMEM263, TMEM268, TMEM272,

TMEM273, TMEM38A, TMEM39A, TMEM39B, TMEM41B, TMEM45A, TMEM45B,

TMEM50B, TMEM60, TMEM62, TMEM63A, TMEM63C, TMEM64, TMEM65, TMEM67,

TMEM69, TMEM70, TMEM8B, TMEM9B, TMIGD2, TMIGD3, TMLHE, TMSB15B,

TMTC1, TMTC2, TMTC3, TMUB1, TMX1, TMX2, TNFAIP8L2, TNFRSF10B,

TNFRSF10C, TNFRSF10D, TNFRSF17, TNFRSF18, TNFRSF25, TNFSF10, TNFSF13,

TNFSF8, TNIK, TNNT3, TNRC6B, TNRC6C, TNS2, TNS3, TOB1, TOB2, TOE1,

TOGARAM2, TOLLIP, TOM1L2, TOMM22, TOMM40L, TOP1MT, TOP2A, TOPORS,

TOR1A, TOR3A, TOR4A, TOX, TOX4, TP53BP1, TP53BP2, TP53I13, TP53I3, TP53TG5,

TPCN2, TPI1, TPK1, TPM2, TPM4, TPMT, TPP1, TPPP, TPPP3, TPRG1, TPRG1L, TPST1,

TPX2, TRA2A, TRA2B, TRABD2A, TRADD, TRAF1, TRAF3IP3, TRAF4, TRAF7,

TRAFD1, TRANK1, TRAP1, TRAPPC10, TRAPPC11, TRAPPC2, TRAPPC3, TRAPPC4,

TRAPPC6A, TRAT1, TREM1, TREML2, TRERF1, TREX2, TRGC1, TRIM23, TRIM28,

TRIM32, TRIM33, TRIM46, TRIM56, TRIM59, TRIM62, TRIM7, TRIM71, TRIM73,

TRIP12, TRIP13, TRIQK, TRIR, TRMT10C, TRMT11, TRMT13, TRMT2B, TRMT6,

TRPC1, TRPC6, TRPM2, TRPS1, TSC22D4, TSEN54, TSG101, TSHR, TSHZ1, TSHZ2,

TSPAN13, TSPAN18, TSPAN2, TSPAN3, TSPAN32, TSPAN4, TSPO, TSPOAP1,

TSPYL1, TSPYL2, TSPYL4, TSSK6, TSTA3, TSTD1, TTC14, TTC16, TTC17, TTC22,

TTC3, TTC33, TTC38, TTC39B, TTC9, TTK, TTL, TTPAL, TUBA1A, TUBA1B, TUBB,

TUBB2A, TUBE1, TUBG1, TUBGCP2, TUBGCP3, TUBGCP6, TUFM, TUT4, TVP23C,

TWF2, TWSG1, TXLNG, TXN, TXN2, TXNDC11, TXNDC15, TXNDC17, TXNDC5,

TXNL1, TXNL4B, TXNRD2, TYMP, TYMS, TYSND1, UACA, UAP1L1, UBA1, UBA3,

UBAP1, UBAP1L, UBE2C, UBE2E1, UBE2E2, UBE2H, UBE2J1, UBE2K, UBE2L3,

UBE2L6, UBE2S, UBE3D, UBL3, UBQLN1, UBQLN2, UBQLN4, UBTD1, UBTD2,

UBTF, UBXN11, UBXN8, UCP3, UGCG, UGGT2, UNC119B, UNC13B, UNC50,

UNC5CL, UNC93B1, UNK, UNKL, UPF3B, UPP1, UPRT, UQCR10, UQCR11, UQCRC1,

UQCRC2, UQCRFS1, UQCRH, UQCRHL, UQCRQ, URI1, UROD, USP11, USP18, USP20,

USP21, USP39, USP41, USP42, USP51, USP54, USP6NL, USP9Y, UST, UTP11, UTP23,

UVRAG, UVSSA, VAMP1, VAMP2, VAMP3, VAMP4, VAMP5, VAMP7, VAMP8,

VAPA, VARS1, VASH1, VCAN, VDAC1, VDAC2, VDR, VEGFB, VENTX, VIM,

VIPAS39, VNN1, VPS11, VPS25, VPS26B, VPS26C, VPS35, VPS35L, VPS37A, VPS45,

VPS54, VRK2, VSIG1, VSIG10L, VSIG4, VTA1, VTI1B, VXN, WARS2, WASF1,

WASHC2A, WASHC2C, WASHC4, WASHC5, WASL, WDFY1, WDR12, WDR18,

WDR27, WDR35, WDR41, WDR54, WDR60, WDR61, WDR62, WDSUB1, WFDC1,

WHAMM, WHRN, WIPF1, WNT10B, WNT11, WNT7A, WSB1, WWC2, WWP1, XCL1,

XCL2, XK, XKR6, XKR8, XPC, XPNPEP1, XPNPEP2, XPO6, XPO7, XRCC2, XRCC3,

XRCC4, XRCC5, XRN2, XRRA1, XXYLT1, XYLT1, YAF2, YEATS2, YES1, YIF1A,

YIF1B, YIPF1, YIPF2, YIPF6, YPEL1, YPEL2, YPEL4, YPEL5, YRDC, YWHAE,

YWHAG, YWHAH, YY1, YY1AP1, ZAP70, ZBED2, ZBTB1, ZBTB10, ZBTB14, ZBTB16,

ZBTB18, ZBTB20, ZBTB25, ZBTB32, ZBTB38, ZBTB4, ZBTB40, ZBTB43, ZBTB44,

ZBTB46, ZBTB7A, ZC3H12B, ZC3H12C, ZC3H12D, ZC3H13, ZC3H6, ZC3H8,

ZC3HAV1, ZCCHC14, ZCCHC18, ZCCHC2, ZCCHC3, ZDHHC11, ZDHHC11B,

ZDHHC12, ZDHHC18, ZDHHC20, ZDHHC3, ZDHHC5, ZDHHC8, ZEB1, ZFAND5, ZFP1,

ZFP14, ZFP30, ZFP41, ZFP57, ZFP62, ZFP82, ZFP91, ZFPM1, ZFYVE26, ZFYVE27,

ZFYVE28, ZHX2, ZMAT5, ZMPSTE24, ZMYM1, ZMYM4, ZMYM5, ZMYND11,

ZMYND19, ZNF100, ZNF106, ZNF107, ZNF12, ZNF121, ZNF131, ZNF136, ZNF138,

ZNF148, ZNF160, ZNF169, ZNF175, ZNF182, ZNF200, ZNF213, ZNF236, ZNF248,

ZNF250, ZNF251, ZNF26, ZNF260, ZNF264, ZNF266, ZNF274, ZNF276, ZNF286A,

ZNF287, ZNF292, ZNF32, ZNF324, ZNF329, ZNF330, ZNF335, ZNF33B, ZNF345,

ZNF350, ZNF365, ZNF366, ZNF382, ZNF383, ZNF394, ZNF414, ZNF428, ZNF429,

ZNF430, ZNF439, ZNF44, ZNF441, ZNF446, ZNF461, ZNF469, ZNF48, ZNF483, ZNF486,

ZNF487, ZNF506, ZNF507, ZNF517, ZNF519, ZNF529, ZNF540, ZNF548, ZNF549,

ZNF552, ZNF562, ZNF566, ZNF567, ZNF568, ZNF569, ZNF570, ZNF573, ZNF574,

ZNF575, ZNF577, ZNF579, ZNF587, ZNF599, ZNF600, ZNF608, ZNF611, ZNF622,

ZNF644, ZNF652, ZNF665, ZNF674, ZNF680, ZNF688, ZNF697, ZNF699, ZNF703,

ZNF707, ZNF71, ZNF720, ZNF736, ZNF737, ZNF74, ZNF770, ZNF782, ZNF783, ZNF789,

ZNF793, ZNF80, ZNF827, ZNF83, ZNF830, ZNF831, ZNF836, ZNF850, ZNF853, ZNF862,

ZNF865, ZNF91, ZNF92, ZNHIT6, ZNRD2, ZRANB2, ZSCAN18, ZSWIM5, ZSWIM6,

ZSWIM9, ZW10, ZWINT, ZXDA, ZXDB

Lung-CoV2 to Lung-CTL (2,220 DEGs in Lung)

A2M, AAK1, ABCC3, ABCF1, ABB, ABLIM1, ABLIM3, ABR, ABT1, ABTB1, ACAD8,

ACADVL, ACO2, ACOD1, ACOT1, ACP2, ACSL1, ACSS1, ACTB, ACTL6A, ACTN4,

ACTR1B, ACVR1, ACVRL1, ADA2, ADAM15, ADAM17, ADAMDEC1, ADAMTS1,

ADAMTS13, ADAMTS2, ADAMTS9, ADAMTSL3, ADAP1, ADCY4, ADCY6,

ADCYAP1, ADD1, ADGRD1, ADGRE1, ADGRE5, ADGRG3, ADGRL2, ADH1B,

ADIPOR2, ADNP2, ADRA2A, AEBP1, AEBP2, AEN, AFAP1L1, AFDN, AFF4, AFG3L2,

AFMID, AGAP3, AGAP4, AGAP6, AGPAT2, AHNAK, AIF1L, AIM2, AIP, AKAP1,

AKAP13, AKAP17A, AKNA, AKR1B10, AKR1B15, AKT3, ALAS1, ALDH3A1, ALDOC,

ALKBH5, ALKBH6, ALOX5AP, ALPK1, ALPL, ALS2CL, AMBRA1, AMFR, AMOTL1,

ANAPC11, ANGEL1, ANGPTL2, ANGPTL6, ANKDD1A, ANKRD10, ANKRD22,

ANKRD54, ANKS1A, ANKZF1, ANO6, ANP32A, ANP32D, ANXA2R, ANXA6, AOC3,

AP2A2, APBB1IP, APH1A, APOBEC3A, APOL6, AQP1, AQP9, ARAP3, ARC, ARF5,

ARFGAP1, ARFRP1, ARHGAP10, ARHGAP4, ARHGAP9, ARHGDIB, ARHGEF15,

ARHGEF25, ARHGEF7, ARL13B, ARL5B, ARMC5, ARMC6, ARPC5L, ARRB2,

ARRDC2, ARSL, ASB1, ASB13, ASB6, ASB8, ASCL4, ASL, ASMTL, ASXL1, ASXL2,

ATAD3A, ATAD3B, ATF4, ATF6B, ATG101, ATG16L1, ATG4B, ATP1A1, ATP1B4,

ATP2A3, ATP5MF, ATP6V0A1, ATP6V0A2, ATP6V0D1, ATP7B, ATRX, ATXN7L3,

AUP1, B4GALT2, B4GALT3, B4GALT7, BAALC, BAG3, BAG6, BAIAP2, BAIAP2L1,

BANF1, BANP, BAP1, BASP1, BAZ2A, BBOF1, BBS1, BBS4, BCAR1, BCAT1, BCAT2,

BCL2A1, BCL2L14, BCL2L2, BCL3, BCOR, BEST1, BHLHE40, BIN1, BIN2, BIN3,

BLCAP, BLOC1S1, BMS1, BRD9, BSDC1, BST1, BTBD17, BTBD19, BTG2, BTN2A2,

BTNL9, BUD13, BUD23, BYSL, C12orf10, C12orf57, C14orf132, C15orf48, C19orf84,

C1orf194, C1orf216, C1QB, C1QC, C1QTNF1, C2, C20orf203, C20orf27, C2CD2, C3AR1,

C3orf86, C4orB, C4orf50, C5AR1, C6, C6orf201, C6orf47, C7orf25, C7orf50, C8A,

C8orB3, C8orf58, CA1, CA12, CA8, CAB39L, CACNA1A, CACNA1C, CACNA1E,

CACNG6, CALHM2, CALR, CAMP, CANT1, CAP1, CAPRIN2, CAPZA1, CARD16,

CARD17, CASP1, CASP4, CASP5, CAVIN1, CAVIN3, CBFA2T2, CBX4, CBX7, CCAR1,

CCDC124, CCDC130, CCDC137, CCDC185, CCDC186, CCDC194, CCDC38, CCDC57,

CCDC60, CCDC69, CCDC71L, CCDC84, CCDC86, CCDC9, CCL11, CCL15, CCL18,

CCL19, CCL2, CCL3, CCL3L1, CCL4, CCL4L2, CCL7, CCL8, CCM2, CCN2, CCN5,

CCND1, CCND3, CCNL2, CCPG1, CCR1, CCR7, CCRL2, CCT4, CCT5, CCT8, CD164,

CD2BP2, CD320, CD34, CD37, CD38, CD4, CD53, CD55, CD69, CD74, CD82, CD8A,

CD9, CDA, CDC37, CDC42BPB, CDCA7, CDH11, CDH2, CDH5, CDHR5, CDK10,

CDK18, CDK4, CDK9, CDKN2AIP, CEACAM1, CEACAM3, CEACAM6, CEACAM8,

CELA3B, CEMIP2, CENPC, CENPT, CEP68, CERK, CERS5, CERS6, CERT1, CETN1,

CFAP20, CFAP300, CFAP36, CFAP77, CFL1, CFLAR, CGRRF1, CHD2, CHI3L1, CHI3L2,

CHID1, CHIT1, CHMP1A, CHRAC1, CHROMR, CIB1, CIRI, CIRBP, CKB, CKS1B, CLC,

CLCN6, CLDN2, CLDN4, CLDN5, CLEC12A, CLEC12B, CLEC1A, CLEC4A, CLEC4D,

CLEC4E, CLEC7A, CLIC3, CLIP4, CLPS, CLPTM1L, CMC2, CMPK2, CMTM2, CNOT1,

CNST, CNTN2, CNTROB, COASY, COG1, COG4, COL12A1, COL16A1, COL2A1,

COL9A2, COLGALT1, COPZ2, CORO1C, COX4I1, CPA5, CPAMD8, CPE, CPLX2,

CPSF7, CPXM2, CR1, CRABP1, CRAMP1, CRCT1, CREB3L2, CREBZF, CRELD2,

CRIP2, CRISP3, CRTC2, CRY2, CRYAB, CSF2RB, CSF3R, CSNK1A1, CSNK1D,

CSNK2A2, CSNK2B, CSPG4, CSRNP1, CST7, CSTA, CTCF, CTDP1, CTDSP2, CTF1,

CTPS1, CTSE, CTSL, CTSS, CTTN, CUL1, CUL9, CWC22, CWF19L2, CXCL10,

CXCL11, CXCL16, CXCL17, CXCR2, CXorf21, CXorf40A, CXorf40B, CXXC5, CYB5R1,

CYBB, CYBRD1, CYC1, CYHR1, CYP19A1, CYP1A1, CYP24A1, CYP2J2, CYP3A5,

CYP4F3, CYP7B1, CYSTM1, CYTH1, CYTIP, DAAM1, DAAM2, DAB2IP, DAPK3,

DAPP1, DAXX, DBF4B, DBNDD1, DCAF12L1, DCAF13, DCAF5, DCDC2C, DCHS1,

DCUN1D3, DCUN1D4, DDB1, DDB2, DDR2, DDT, DDTL, DDX23, DDX39A, DDX42,

DDX5, DDX56, DDX58, DDX60, DDX60L, DENND2A, DENND3, DEPP1, DES, DGKD,

DGKE, DHDDS, DHPS, DHRS9, DHX29, DHX32, DHX9, DIAPH1, DIDO1, DIP2A,

DIPK2B, DISP1, DKK3, DLG4, DLK1, DLL1, DLL4, DLST, DLX2, DMBT1, DMRT1,

DMRTB1, DNAAF1, DNAAF3, DNAH7, DNAJB2, DNAJC11, DNAJC7, DNASE1,

DNMT1, DNPEP, DNTTIP1, DOCK1, DOCK6, DOCK9, DOK2, DOK3, DOK4, DPH1,

DPH2, DPH7, DPM3, DPP7, DPT, DPYSL3, DRD2, DST, DTX3, DTX4, DUSP1, DUSP10,

DUSP7, DYNLT1, DYRK2, DYRK3, E2F4, EBLN1, EBNA1BP2, ECE1, EDC3, EDC4,

EDNRA, EED, EEF2, EFEMP2, EFL1, EFNA1, EFNB1, EGF, EGFL7, EGR1, EGR2,

EIF1B, EIF2AK2, EIF2AK4, EIF2B4, EIF2B5, EIF2D, EIF3B, EIF3D, EIF3G, EIF3L,

EIF4A1, EIF4E2, EIF4G1, ELAC2, ELP1, EMC9, EMP1, EMP2, EN2, ENDOD1, ENG,

ENKD1, ENO2, ENOSF1, ENTPD6, ENTR1, EOMES, EPAS1, EPB41L1, EPC1, EPHA2,

EPHA7, EPHB4, EPN2, EPOP, EPSTI1, ERBB2, ERCC1, ERRFI1, ESF1, ETS1, ETV1,

EVI2A, EVI2B, EVI5, EVL, EXOC2, EXOC3, EXOSC7, EXOSC8, EZR, F2RL3, F5, F8A1,

F8A3, FABP6, FAM107A, FAM110D, FAM118A, FAM126A, FAM131A, FAM13B,

FAM151B, FAM160A2, FAM168B, FAM174B, FAM174C, FAM177B, FAM193A,

FAM199X, FAM207A, FAM20B, FAM20C, FAM214B, FAM234A, FAM32A, FAM3A,

FAM53B, FAM71D, FAM72A, FAM83G, FAM8A1, FAM9A, FAR2, FARS2, FARSA,

FASTK, FASTKD2, FAXDC2, FBH1, FBP1, FBXO31, FBXO39, FBXO9, FBXW4,

FBXW5, FCER1G, FCGR1A, FCGR2A, FCGR3A, FCGR3B, FCN1, FDCSP, FDPS, FER,

FES, FFAR2, FGD4, FGD5, FGFR1, FGG, FGL1, FGL2, FGR, FHL1, FHL3, FHOD1, FIBP,

FIS1, FKBP1A, FLAD1, FLG, FLG2, FLNA, FLNC, FLT1, FLT4, FLYWCH2, FNBP4,

FOS, FOSB, FOXD3, FOXD4L1, FOXJ2, FOXK2, FOXN3, FOXO4, FOXP2, FPR1, FPR2,

FREM2, FRMD6, FRYL, FXYD6, FYB1, FZD4, G6PD, GAB4, GABRA5, GADD45A,

GADD45B, GADD45G, GAK, GAL, GALNT15, GALNT18, GAN, GAPT, GAS5, GAS6,

GATA2, GATD3A, GBA2, GBP1, GBP3, GBP4, GBP5, GCA, GCFC2, GCH1, GCNT3,

GDPD5, GEM, GFOD1, GGA1, GGA2, GGA3, GIMAP1, GIMAP6, GIMAP7, GIPC1,

GJA4, GJA5, GK, GKN2, GLDN, GLG1, GLRX, GLT8D1, GMFG, GMPPA, GMPR,

GNA11, GNA12, GNG11, GNG2, GNG5, GNL1, GNL2, GNLY, GOLGA3, GOLGA6L4,

GOLGA8A, GOLGA8B, GON4L, GPAT4, GPD1L, GPM6B, GPN3, GPR141, GPR37L1,

GPR65, GPR68, GPR84, GPRC5B, GPSM3, GPX1, GPX2, GRB10, GRB7, GRPEL2,

GRSF1, GRWD1, GSDMD, GSK3A, GSN, GSS, GSTO1, GTF2B, GTF3C5, GTPBP4,

GTPBP6, GTSF1, GUCD1, GUCY1A2, GUK1, H19, H2AC18, H2AC19, H2AC20, H2AC6,

H2AJ, H2BC18, H2BC21, H2BC4, H2BC5, H2BC7, H4C8, HABP4, HAMP, HARS2,

HAUS2, HBA1, HBA2, HBB, HBD, HBG1, HBS1L, HCAR1, HCAR2, HCFC1R1, HCK,

HCST, HDAC3, HDAC7, HDLBP, HECTD1, HELB, HELZ2, HERC2, HERC5, HERC6,

HERPUD1, HES1, HESX1, HEXA, HEXB, HEYL, HIF3A, HINFP, HIPK1, HIPK2, HJURP,

HLA-A, HLA-B, HLA-DQA1, HLA-DQB1, HLA-DRB1, HLA-DRB5, HMCES, HMGCS1,

HMGN3, HMGXB3, HMOX1, HNRNPAB, HNRNPH1, HNRNPM, HOXA5, HOXB1, HP,

HPGDS, HPR, HPS4, HS1BP3, HS3ST3A1, HSDL1, HSFX1, HSFX2, HSH2D, HSPA12B,

HSPA2, HSPA6, HSPA8, HSPB6, HSPB7, HTR1A, HTRA3, HYAL1, HYAL2, HYOU1,

ICAM2, ID2, ID3, IDH2, IDO1, IER2, IER3, IER5L, IFFO1, IFI44, IFI44L, IFI6, IFIH1,

IFITI, IFITIB, IFIT2, IFIT3, IFIT5, IFITM1, IFITM2, IFITM3, IFNA10, IFNA17, IFNA21,

IFNA4, IFNA6, IFNL1, IFT43, IGFBP1, IGFLR1, IGLL1, IGLL5, IGSF3, IGSF6, IL12B,

IL17C, IL18RAP, ILIA, IL1B, IL1R2, ILIRN, IL27, IL2RG, IL4R, ILF3, ILKAP, ILRUN,

ILVBL, IMPDH2, INAFM1, ING2, ING5, INMT, INO80E, INPP1, INPP5A, INPP5K,

INSM1, INSYN2B, INTS10, INTS11, INTS3, IPO8, IQCM, IRF2, IRF7, ISG15, ISG20L2,

IST1, ITGA10, ITGA5, ITGA8, ITGB3, ITGB8, ITM2A, ITM2C, ITPA, ITPKB, ITPKC,

ITPR3, ITPRIP, JADE1, JAG1, JAK3, JAM3, JCAD, JCHAIN, JMJD6, JOSD2, JUN, JUND,

KANK2, KAT5, KCNE1, KCNEIB, KCNJ2, KCNK17, KCNK3, KCTD10, KCTD11,

KCTD12, KCTD2, KCTD20, KCTD3, KDM1A, KDM3A, KHDRBS3, KIAA0100,

KIAA0355, KIAA0513, KIAA0825, KIAA0930, KIAA1671, KIF1C, KIF22, KIF3B, KIFC2,

KLF10, KLF11, KLF13, KLF4, KLHDC3, KLHDC4, KLHDC7B, KLHL21, KLHL3,

KLHL42, KMT2A, KMT5A, KNDC1, KPRP, KRI1, KRIT1, KRT17, KRT19, KRT72,

KRT81, KSR1, LAGE3, LAMA2, LAMA4, LAMB1, LAMC3, LAMP3, LAMTOR4,

LARGE1, LARP6, LAS1L, LASP1, LBH, LBP, LCE1C, LCN2, LCP1, LCP2, LDB1,

LDLRAP1, LENG8, LEPR, LGALS9, LGALS9B, LGALS9C, LGI1, LGI4, LHFPL6, LIF,

LIFR, LILRA1, LILRA5, LILRA6, LILRB2, LILRB3, LILRB5, LIPA, LITAF, LMANIL,

LMAN2L, LMBR1L, LMNA, LMNB1, LMO2, LMOD1, LONP1, LOR, LPAR6, LPCAT4,

LRATD2, LRFN1, LRFN3, LRIG1, LRPAP1, LRRC1, LRRC15, LRRC32, LRRC47,

LRRC74A, LRRFIP1, LRRK2, LRRTM1, LSM7, LSS, LST1, LTF, LTO1, LUC7L,

LUC7L3, LUZP1, LY6E, LY86, LY96, LYN, LYPLA1, LYRM4, LYVE1, LZTR1, LZTS1,

LZTS2, MACC1, MADD, MAF1, MAFF, MAFG, MAFK, MAGEB16, MAN1B1,

MAN2C1, MAP2K3, MAP2K6, MAP2K7, MAP3K14, MAP3K6, MAP3K7CL, MAP4,

MAP4K5, MAPK11, MAPK9, MAPKAPK2, MARCHF2, MARCKS, MARK3, MARS1,

MAST2, MAT2A, MBD3, MBIP, MCAM, MCF2L, MCM3AP, MCM7, MCTP2, MCTS1,

MDC1, MDGA2, MDH1B, ME3, MED11, MED15, MED18, MED24, MEDAG, MEF2D,

MEIS1, MEPCE, METTL17, METTL3, METTL7A, METTL7B, MFAP1, MFGE8, MFN2,

MFNG, MFSD6, MGAM, MGAT5B, MGLL, MICAL1, MICB, MIER1, MIF4GD, MINK1,

MLLT10, MLNR, MLXIP, MMAB, MMP1, MMP10, MMP12, MMP14, MMP25, MMP28,

MMP8, MNDA, MOAP1, MOB2, MON2, MORC2, MPHOSPH10, MPHOSPH8, MPLKIP,

MPPED1, MPRIP, MPV17, MPZL1, MRFAP1L1, MRNIP, MRPL11, MRPL28, MRPL44,

MRPL55, MRPS2, MRTFA, MS4A15, MS4A3, MSTO1, MTA2, MTA3, MTCH1, MT-CO1,

MT-CO2, MT-CO3, MTFR1L, MTHFR, MT1F3, MTLN, MTURN, MTX1, MUC5AC,

MUL1, MVP, MX1, MX2, MXD1, MXD4, MXRA7, MYADM, MYBBP1A, MYC,

MYCBP2, MYCT1, MYL1, MYO15B, MYO1D, MYO1G, MYO9B, MYOM2, MYOZ2,

MYZAP, MZB1, MZT2B, NAA10, NAA35, NAA38, NAA60, NAB2, NADSYN1, NAP1L4,

NASP, NAT10, NAT9, NBL1, NBN, NBPF26, NCALD, NCAPH2, NCBP2AS2, NCF4,

NCKIPSD, NCR1, NDNF, NDRG1, NDRG2, NDST1, NDST2, NDUFA4L2, NDUFAB1,

NDUFS2, NDUFS6, NDUFS8, NDUFV1, NEBL, NECAP1, NEIL2, NEK7, NELFA,

NELFB, NELFE, NEMP2, NES, NETO1, NEXN, NF2, NFATC2, NFATC4, NFKBID,

NFRKB, NFX1, NIBAN2, NIPAL3, NISCH, NKD1, NKPD1, NLE1, NLRP1, NME1, NMI,

NMRAL1, NOC2L, NOD1, NOL4, NOL8, NOP10, NOP16, NOP53, NOP56, NOP9,

NORAD, NOSIP, NOTCH2, NOTCH4, NOTO, NPC1, NPIPB11, NPIPB12, NPIPB13,

NPIPB3, NPIPB4, NPIPB5, NPR1, NPR3, NR1D2, NR2C2, NR2C2AP, NR4A1, NRBP1,

NRIP1, NSD2, NSUN4, NT5C3A, NT5DC2, NTNG2, NTRK2, NUAK1, NUDCD3,

NUMA1, NUP188, NUPR1, NYNRIN, NYX, OAS1, OAS2, OAS3, OASL, OBSCN, ODC1,

OLIG1, OLR1, ONECUT1, OR13G1, OR2AT4, OR2C1, ORAI2, OS9, OSBPL10, OSGEP,

OTUD3, OTUD7B, OTULINL, OTX1, OXCT1, P2RY13, P2RY14, P3H1, P4HB, PACS2,

PACSIN2, PACSIN3, PADI2, PADI4, PAK1, PALD1, PALMD, PAMR1, PAN2, PAPPA,

PAQR9, PARD3, PARL, PARP2, PARP9, PARVB, PATL1, PAX9, PAXX, PBXIP1,

PCAT1, PCBP1, PCDH1, PCDH12, PCGF3, PCGF5, PCID2, PCNX3, PCSK9, PCTP,

PDCD11, PDE2A, PDE4B, PDE9A, PDGFB, PDGFRB, PDGFRL, PDIA5, PDIA6, PDK4,

PDLIM3, PDLIM4, PDPK1, PDRG1, PDXK, PEAK1, PELI1, PELO, PER1, PER3, PEX5,

PFKL, PFN1, PGAM4, PGAP6, PGF, PGLYRP1, PHC2, PHF11, PHLDA2, PHLDA3,

PHLDB1, PHPT1, PI4K2A, PI4K2B, PI4KA, PI4KB, PIAS3, PIEZO1, PIGR, PIGU,

PIH1D1, PIK3AP1, PIK3IP1, PIK3R4, PILRA, PIM2, PIN4, PIP4P1, PISD, PJA1, PKLR,

PKN1, PLA2G7, PLAAT2, PLAAT3, PLAC8, PLAC9, PLBD1, PLCD1, PLCG1, PLEK,

PLEKHA4, PLEKHG3, PLEKHJ1, PLEKHM1, PLEKHM2, PLEKHO1, PLEKHO2,

PLEKHS1, PLK2, PLLP, PLP2, PLPP1, PLPP3, PLSCR4, PLXNA2, PLXNB1, PLXNB2,

PLXND1, PML, PMPCB, PNISR, PNLDC1, PNMA5, PNP, PNRC1, PODN, PODXL,

POFUT2, POLDIP3, POLR1E, POLR2D, POLR2K, POLR3C, POLR3GL, POM121C,

POMT2, POMZP3, POP5, POU2AF1, POU6F1, PPARGC1B, PPDPF, PPIB, PPID, PPIG,

PPIH, PPM1F, PPM1M, PPPI1CA, PPP1R12A, PPP1R12C, PPP1R13B, PPP1R14A,

PPP1R14B, PPP1R16B, PPP1R3C, PPP2R5B, PPP3R1, PPP6R2, PPRC1, PQBP1, PRDM2,

PRDM8, PRDX1, PRDX2, PRELID1, PRKAB1, PRKAR1B, PRKAR2A, PRKX, PRMT1,

PRMT7, PRMT9, PROK2, PRPF39, PRPF6, PRR13, PRR14L, PRR3, PRR36, PRSS16,

PRX, PSENEN, PSMA4, PSMB1, PSMB10, PSMB4, PSMC1, PSMC3, PSMC5, PSMC6,

PSMD2, PSMD4, PSMD6, PSMD7, PSMD8, PSME3, PSTPIP2, PTCD3, PTDSS2, PTGDS,

PTGIS, PTH1R, PTK2B, PTK7, PTMS, PTP4A3, PTP A, PTPN1, PTPN13, PTPN3, PTPRC,

PTPRM, PTPRZ1, PUF60, PUS1, PVR, PWP2, PWWP2A, PWWP3A, PWWP3B, PXDC1,

PXDN, PXN, PYCR2, PYGO2, QARS1, QSOX1, QTRT1, R3HCC1, RAB11FIP3, RAB34,

RAB4A, RAB8B, RABGAP1L, RABGGTA, RAC2, RACK1, RAF1, RAI2, RALGDS,

RAMP3, RANBP10, RANBP3, RANGAP1, RAPGEF1, RAPGEF3, RARRES2, RASA3,

RASD2, RASGEF1B, RASGEF1C, RASIP1, RASL11A, RASL12, RASSF1, RASSF10,

RBFOX2, RBM10, RBM11, RBM19, RBM33, RBM6, RBP4, RCAN1, RCC2, RCE1, RCN2,

RCOR1, RECK, REPS2, RETREG3, REV3L, REX1BD, RFC1, RFLNB, RFTN1, RFXANK,

RGCC, RGL4, RGP1, RGPD1, RGPD2, RGPD3, RGPD4, RGPD5, RGPD6, RGS12, RGS18,

RGS3, RGS4, RHBDD2, RHBDF1, RHOC, RHOH, RIMS3, RIOK2, RIPOR2, RMDN1,

RMND5A, RMND5B, RNASE2, RND1, RND3, RNF113A, RNF122, RNF144A, RNF149,

RNF152, RNF168, RNF175, RNF185, RNF19B, RNF25, RNF4, RNF40, RNMT, RNPS1,

RNU4ATAC, ROBO3, ROBO4, RP2, RPAIN, RPH3A, RPIA, RPL13, RPL18, RPL3,

RPL36AL, RPL8, RPLP0, RPRD1A, RPS19BP1, RPS28, RPS5, RPS6KA2, RPS9, RPSA,

RPTOR, RRAD, RRP1, RRP12, RRP7A, RSAD1, RSAD2, RTKN2, RTN3, RTP4,

RUVBL2, RXRB, S100A11, S100A12, S100A13, S100A16, S100A2, S100A8, S100A9,

S100P, S100PBP, S1PR2, SAA1, SAA2, SAE1, SAFB, SAFB2, SAMD9, SAMD9L,

SAMSN1, SARS1, SASH1, SAT1, SCAF4, SCAMP4, SCGB1A1, SCN2A, SCN4B, SCN7A,

SCNN1G, SCP2D1, SCRN2, SCYL1, SDC3, SDHAF1, SEC16A, SEC23A, SEC23IP,

SELENBP1, SELL, SELP, SEM1, SEMA3B, SEMA3F, SEMA4C, SEMA6B, SENP3,

SENP5, SEPHS1, SEPTIN14, SEPTIN8, SEPTIN9, SERF2, SERPINA1, SERPINB2,

SERPINB6, SERPINB9, SERPINE2, SERTAD1, SERTAD3, SESN2, SEZ6L2, SF3A2,

SF3B1, SF3B4, SF3B5, SFN, SFRP2, SFT2D1, SFTPC, SGCA, SGIP1, SGK1, SGSM2,

SGTA, SH3BGRL3, SH3BP5, SH3D19, SH3PXD2A, SH3PXD2B, SH3RF1, SH3TC1,

SHANK3, SHC2, SHE, SHFL, SHOC1, SIDT2, SIGLEC14, SIGLEC5, SIK2, SIRPB1,

SIRT1, SIVA1, SKIV2L, SKOR1, SLAMF7, SLC24A4, SLC25A23, SLC25A25,

SLC25A29, SLC25A3, SLC25A30, SLC25A36, SLC25A4, SLC25A44, SLC25A6,

SLC26A8, SLC30A4, SLC35A4, SLC35B2, SLC35F1, SLC35F2, SLC35G2, SLC38A5,

SLC39A7, SLC39A8, SLC41A3, SLC44A2, SLC5A7, SLC66A2, SLC6A8, SLC9A1,

SLCO2B1, SLF2, SLIT2, SLIT3, SLK, SMAD7, SMAP2, SMARCA4, SMARCB1,

SMARCD2, SMC3, SMG5, SMIM25, SMIM27, SMIM3, SMPD4, SMTN, SMURF1,

SNAH, SNAPC2, SNCG, SNHG3, SNRNP200, SNRNP70, SNRPA1, SNX10, SNX11,

SNX25, SOCS1, SOCS2, SOGA1, SOS1, SP110, SP140, SP140L, SPAG6, SPARCL1,

SPATA16, SPATA31E1, SPEM2, SPG7, SPHK1, SPH, SPOUT1, SPRED1, SPRR2E,

SPRYD3, SPTLC2, SQSTM1, SREK1, SRGN, SRSF5, SRSF7, SSH1, SSNA1, ST6GAL1,

ST6GAL2, ST6GALNAC4, ST8SIA2, STAB1, STAG1, STAP1, STAP2, STARD3,

STARD8, STARD9, STAT1, STAT2, STAT4, STAT5A, STC1, STEAP1, STEAP4, STK16,

STK25, STK38, STK40, STN1, STRIP1, STRN4, STUB1, STX11, STXBP6, STYX,

SUCNR1, SUGP1, SULT1A1, SULT1A2, SULT1B1, SUN1, SUN3, SUN5, SUPT6H,

SURF1, SURF6, SYAP1, SYN1, SYNE1, SYNM, SYNPO, SYNPO2L, SYT11, TACC1,

TAF1, TAFA2, TAGAP, TAGLN, TANC1, TANC2, TAOK3, TAPI, TARBP2, TARS3,

TATDN2, TAZ, TBC1D17, TBC1D2B, TBC1D9, TBC1D9B, TBCEL, TBP, TBX2, TCEA3,

TCEAL9, TCERG1, TCF21, TCF24, TCF25, TCF7L1, TCN1, TEAD3, TECPR1, TEF,

TET2, TEX10, TEX264, TEX9, TFEC, TFIP11, TFPI2, TGFBR1, TGFBR2, THAP2,

THAP7, THBD, THBS3, THEM4, THOC6, THSD7B, THUMPD3, TIMM13, TIMM23,

TIMM44, TIMP3, TINAGL1, TJAP1, TLE3, TLE4, TLR1, TLR7, TM4SF20, TMBIM1,

TMC6, TMEM100, TMEM109, TMEM125, TMEM154, TMEM171, TMEM176B,

TMEM200B, TMEM208, TMEM235, TMEM245, TMEM252, TMEM255B, TMEM39B,

TMEM45B, TMEM51, TMEM52B, TMEM71, TMEM74B, TMEM88, TMOD1, TMPRSS2,

TMTC1, TNF, TNFAIP1, TNFAIP6, TNFRSF10B, TNFRSF14, TNFSF10, TNFSF13B,

TNFSF14, TNFSF8, TNIK, TNIP2, TNIP3, TNNC1, TNS1, TNS2, TNXB, TOE1, TOLLIP,

TOM1L2, TOMM34, TOP2A, TOR1B, TP53BP1, TP53BP2, TP73, TPCN1, TPD52L2,

TPP1, TPRG1L, TPSAB1, TPSB2, TPST1, TRAF2, TRAF5, TRAK1, TRAK2, TRAPPC10,

TREM1, TREML4, TRGC1, TRIB3, TRIM21, TRIM22, TRIM29, TRIM38, TRIM5,

TRIM69, TRIO, TRIP10, TRIR, TRIT1, TRMT61A, TRNAU1AP, TRPC4AP, TRPC6,

TRPM5, TRPM8, TRRAP, TSC1, TSC22D3, TSFM, TSPAN18, TSPAN4, TSPAN9,

TSPYL2, TSR1, TSSC4, TTC14, TTC31, TTC7A, TTL, TUBA1A, TUBA1B, TUBA1C,

TUBA4A, TUBB2A, TUBB2B, TUBB4B, TUBB6, TUBGCP2, TUBGCP3, TUBGCP6,

TULP3, TUSC7, TUT4, TWF2, TWNK, TXLNA, TXNDC11, TYROBP, UACA, UBA7,

UBB, UBC, UBE2J2, UBE2L6, UBIAD1, UBL4A, UBR4, UBTF, UBXN1, UCP2,

UNC13B, UNC80, UNC93A, UPK2, UPK3B, UPP1, UQCC2, UQCRC1, URB1, URGCP,

URM1, UROD, USB1, USP15, USP18, USP19, USP20, USP22, USP30, USP40, USP47,

USP53, USP7, UTP14C, UTP20, UTP6, VASN, VASP, VAX1, VCPKMT, VIPR1, VLDLR,

VNN2, VOPP1, VPS11, VPS13D, VPS16, VPS18, VPS28, VPS37B, VPS39, VPS8,

VSIG10L, VSIG2, VSTM4, VWA7, VWF, WAS, WASHC1, WBP1L, WDR13, WDR37,

WDR43, WDR74, WDR75, WDR91, WIPF1, WIPI1, WIPI2, WNT2B, XAB2, XAF1,

XAGE1A, XAGE1B, XKR9, XPC, XPO5, XRCC6, XRN1, YARS1, YKT6, YPEL3, ZBP1,

ZBTB10, ZBTB17, ZBTB34, ZBTB44, ZBTB5, ZC3H7B, ZC3HAV1, ZCCHC24, ZCCHC7,

ZDHHC11B, ZDHHC19, ZDHHC7, ZFAND2B, ZFP36L2, ZFYVE19, ZMYM2, ZNF106,

ZNF133, ZNF154, ZNF160, ZNF263, ZNF3, ZNF320, ZNF330, ZNF331, ZNF384,

ZNF385A, ZNF385D, ZNF394, ZNF395, ZNF426, ZNF451, ZNF480, ZNF496, ZNF513,

ZNF585B, ZNF599, ZNF622, ZNF692, ZNF697, ZNF761, ZNF83, ZNF841, ZNRD2,

ZNRF4, ZPLD1, ZRANB1, ZRSR2, ZSCAN18, ZSWIM7, ZSWIM8, ZZEF1

BAL-CoV2 to PBMC-CoV2 (8,959 DEGs in Airway)

A2M, A2ML1, A4GNT, AAAS, AACS, AADAT, AAGAB, AAMP, AANAT, AARS2,

AASDHPPT, AASS, AATF, AATK, ABCA1, ABCA12, ABCA13, ABCA2, ABCA3,

ABCA5, ABCA6, ABCA7, ABCB1, ABCB10, ABCB11, ABCB7, ABCB8, ABCB9,

ABCC1, ABCC10, ABCC2, ABCC3, ABCC4, ABCD1, ABCD2, ABCD3, ABCD4, ABCE1,

ABCF2, ABCF3, ABCG1, ABCG8, ABHD10, ABHD12, ABHD12B, ABHD13, ABHD16A,

ABHD17A, ABHD17B, ABHD17C, ABHD2, ABHD3, ABHD6, ABHD8, ABH, ABI3BP,

ABITRAM, ABL1, ABL2, ABT1, ABTB1, ACAA1, ACAA2, ACACB, ACAD10, ACAD8,

ACAD9, ACADL, ACADM, ACADS, ACADSB, ACADVL, ACAP1, ACAP2, ACAP3,

ACAT1, ACBD3, ACBD4, ACBD5, ACCS, ACD, ACE, ACE2, ACHE, ACIN1, ACLY,

ACO1, ACO2, ACOD1, ACOT1, ACOT11, ACOT13, ACOT2, ACOT4, ACOT7, ACOT8,

ACOX1, ACOX2, ACOX3, ACP2, ACP5, ACPP, ACRBP, ACSF3, ACSL4, ACSL5,

ACSL6, ACSM3, ACSM6, ACSS1, ACSS2, ACSS3, ACTB, ACTG1, ACTL6A, ACTN4,

ACTR1A, ACTR1B, ACTR2, ACTR3C, ACVR1, ACVR1C, ACVR2A, ACVRL1, ACYP2,

ADA2, ADAM10, ADAM15, ADAM19, ADAM22, ADAM28, ADAM32, ADAM8,

ADAMDEC1, ADAMTS10, ADAMTS19, ADAMTS2, ADAMTS9, ADAMTSL4, ADAP1,

ADARB1, ADCK1, ADCK2, ADCK5, ADCY2, ADCY3, ADCY6, ADCY7, ADCY9,

ADD1, ADD2, ADD3, ADGB, ADGRA2, ADGRE3, ADGRE5, ADGRF1, ADGRF5,

ADGRG1, ADGRG3, ADGRG5, ADGRG6, ADGRL1, ADGRL2, ADGRV1, ADH1B,

ADH1C, ADH5, ADH6, ADH7, ADHFE1, ADIPOR1, ADIPOR2, ADM, ADNP, ADNP2,

ADORA1, ADORA3, ADPGK, ADPRHL1, ADPRM, ADRM1, ADSL, ADSS1, ADTRP,

AEBP1, AEN, AFAP1L2, AFDN, AFF2, AFF3, AFF4, AFG1L, AFG3L2, AGAP1, AGAP2,

AGAP4, AGAP6, AGAP9, AGBL2, AGBL5, AGER, AGFG1, AGFG2, AGGF1, AGMAT,

AGO1, AGO2, AGO4, AGPAT1, AGPAT2, AGPAT3, AGPS, AGR2, AGR3, AGRN,

AGRP, AGTPBP1, AGTRAP, AHDC1, AHU, AHNAK, AHSA1, AHSP, AICDA, AIF1,

AIFM1, AIG1, AIM2, AIP, AJM1, AK1, AK4, AK6, AK7, AK9, AKAP1, AKAP11,

AKAP12, AKAP13, AKAP14, AKAP17A, AKAP3, AKAP5, AKAP6, AKAP7, AKAP8,

AKAP8L, AKAP9, AKIRIN1, AKIRIN2, AKNA, AKR1A1, AKR1B1, AKR1C1, AKR1C2,

AKR1C3, AKR1C4, AKR7A2, AKT1, AKT1S1, AKT2, AKT3, AKTIP, ALAD, ALAS1,

ALAS2, ALCAM, ALDH16A1, ALDH1A1, ALDH1A2, ALDH1A3, ALDH1B1, ALDH2,

ALDH3A1, ALDH3A2, ALDH3B1, ALDH3B2, ALDH4A1, ALDH6A1, ALDH7A1,

ALDOA, ALG1, ALG12, ALG14, ALG2, ALG6, ALG9, ALK, ALKBH1, ALKBH4,

ALKBH5, ALKBH6, ALMS1, ALOX12, ALOX12B, ALOX15, ALOX5AP, ALPK3,

ALYREF, AMDHD2, AMER1, AMFR, AMOTL1, AMOTL2, AMPD2, AMPD3, AMY1B,

AMY2A, AMY2B, AMZ2, ANAPC10, ANAPC11, ANAPC13, ANAPC15, ANAPC2,

ANAPC4, ANAPC5, ANGPT4, ANGPTL1, ANK1, ANK2, ANK3, ANKDD1A, ANKFN1,

ANKH, ANKHD1, ANKHD1-EIF4EBP3, ANKIB1, ANKLE2, ANKMY1, ANKMY2,

ANKRA2, ANKRD10, ANKRD12, ANKRD13A, ANKRD13D, ANKRD17, ANKRD18B,

ANKRD22, ANKRD26, ANKRD27, ANKRD28, ANKRD29, ANKRD34B, ANKRD35,

ANKRD36B, ANKRD39, ANKRD46, ANKRD50, ANKRD52, ANKRD54, ANKRD55,

ANKRD6, ANKRD65, ANKRD66, ANKRD9, ANKS1A, ANKUB1, ANKZF1, ANO10,

ANO5, ANO6, ANO8, ANO9, ANOS1, ANP32A, ANP32B, ANPEP, ANTXR1, ANTXR2,

ANXA1, ANXA11, ANXA2, ANXA3, ANXA4, ANXA5, ANXA6, AOAH, AOC2, AOC3,

AOPEP, AOX1, AP1AR, AP1B1, AP1G2, AP1M1, AP1S1, AP1S2, AP2A1, AP2M1,

AP3B1, AP3M1, AP3S2, AP4B1, AP4E1, AP5B1, AP5Z1, APAF1, APBA1, APBA2,

APBA3, APBB1, APBBHP, APBB2, APBB3, APC, APC2, APEH, APELA, APEX2,

APH1A, APIP, APLF, APLP2, APMAP, APOBEC3B, APOBEC3C, APOBEC3F,

APOBEC4, APOBR, APOC1, APOE, APOL2, APOL3, APOL4, APOM, APOO, APOOL,

APP, APPL2, APRT, APTX, AQP10, AQP4, AQP5, AQR, AR, ARAF, ARAP1, ARAP3,

ARCN1, AREG, ARF1, ARF3, ARF5, ARFGAP1, ARFGAP2, ARFGAP3, ARFGEF1,

ARFGEF3, ARFIP1, ARFRP1, ARGLU1, ARHGAP1, ARHGAP10, ARHGAP11A,

ARHGAP12, ARHGAP15, ARHGAP18, ARHGAP19, ARHGAP21, ARHGAP25,

ARHGAP27, ARHGAP30, ARHGAP32, ARHGAP33, ARHGAP4, ARHGAP42,

ARHGAP44, ARHGAP5, ARHGAP6, ARHGAP9, ARHGDIA, ARHGDIB, ARHGEF1,

ARHGEF16, ARHGEF18, ARHGEF19, ARHGEF2, ARHGEF28, ARHGEF3, ARHGEF35,

ARHGEF38, ARHGEF39, ARHGEF40, ARHGEF6, ARHGEF7, ARID1A, ARID1B,

ARID2, ARID3A, ARID3B, ARID4A, ARID5A, ARIH1, ARIH2, ARL1, ARL10, ARL13B,

ARL14, ARL14EP, ARL15, ARL16, ARL17A, ARL2BP, ARL3, ARL4A, ARL4C, ARL5A,

ARL6, ARL6IP6, ARL8A, ARL8B, ARMC2, ARMC3, ARMC4, ARMC5, ARMC6,

ARMC7, ARMC8, ARMC9, ARMCX1, ARMCX2, ARMCX4, ARMH1, ARMH3, ARMT1,

ARNTL, ARNTL2, ARPCIA, ARPC1B, ARPC2, ARPC3, ARPC4, ARPP19, ARRB2,

ARRDC1, ARRDC2, ARSA, ARSD, ARSG, ARV1, ARVCF, ASAP3, ASB1, ASB6, ASB8,

ASCC1, ASCC2, ASCC3, ASF1A, ASF1B, ASGR1, ASGR2, ASH1L, ASIC3, ASL,

ASMTL, ASPH, ASPHD2, ASPN, ASPSCR1, ASRGL1, ASS1, ASTN2, ASXL1, ASXL2,

ASXL3, ATAD2, ATAD2B, ATAD3A, ATAD3B, ATAD3C, ATF1, ATF2, ATF3, ATF4,

ATF6, ATF6B, ATF7IP, ATG101, ATG12, ATG13, ATG14, ATG16L2, ATG2A, ATG2B,

ATG3, ATG4A, ATG4B, ATG4C, ATG4D, ATG5, ATG7, ATG9A, ATL2, ATL3, ATM,

ATMIN, ATOX1, ATP10A, ATP10B, ATP11A, ATP12A, ATP13A1, ATP13A2, ATP13A3,

ATP1A1, ATP1B1, ATP1B4, ATP23, ATP2A2, ATP2A3, ATP2B1, ATP2B2, ATP2B4,

ATP2C2, ATP5F1A, ATP5F1B, ATP5F1C, ATP5F1D, ATP5F1E, ATP5IF1, ATP5MC1,

ATP5MC2, ATP5MC3, ATP5MD, ATP5ME, ATP5MF, ATP5MG, ATP5MPL, ATP5PB,

ATP5PD, ATP5PF, ATP5PO, ATP6AP1, ATP6AP1L, ATP6AP2, ATP6V0A2, ATP6V0A4,

ATP6V0B, ATP6V0C, ATP6V0D1, ATP6V0D2, ATP6V0E1, ATP6V0E2, ATP6V1A,

ATP6V1C1, ATP6V1D, ATP6V1E1, ATP6V1F, ATP6V1G1, ATP6V1H, ATP7A, ATP7B,

ATP8A1, ATP8B1, ATP8B2, ATP8B3, ATP9A, ATPAF1, ATPAF2, ATXN1L, ATXN2,

ATXN2L, ATXN3, ATXN7, ATXN7L1, ATXN7L3, ATXN7L3B, AUH, AUP1, AURKA,

AURKB, AUTS2, AVEN, AVPI1, AXIN1, AXL, AZGP1, AZI2, AZIN2, AZU1, B2M,

B3GALNT1, B3GALNT2, B3GALT5, B3GALT6, B3GAT1, B3GAT3, B3GNT2, B3GNT3,

B3GNT5, B3GNT7, B3GNT8, B3GNTL1, B4GALT2, B4GALT3, B4GALT4, BACE2,

BACH2, BAD, BAG2, BAG3, BAG6, BAHCC1, BAHD1, BAIAP2L1, BAK1, BANF1,

BANK1, BANP, BAP1, BATF3, BAX, BAZ1A, BAZ1B, BAZ2A, BAZ2B, BBC3, BBIP1,

BBS10, BBS12, BBS2, BBS9, BBX, BCAM, BCAP29, BCAP31, BCAR3, BCAS1, BCAS2,

BCAT1, BCCIP, BCKDHA, BCKDHB, BCKDK, BCL11B, BCL2A1, BCL2L1, BCL2L11,

BCL2L14, BCL2L15, BCL3, BCL6, BCL9L, BCLAF1, BCLAF3, BCOR, BCORL1, BCR,

BDH2, BDKRB2, BDP1, BECN1, BEND2, BEND4, BEND5, BEND7, BEST3, BET1,

BET1L, BEX1, BFSP1, BHLHA15, BHLHE40, BHLHE41, BICD1, BICD2, BICDL2,

BICRA, BICRAL, BIN1, BIN2, BIN3, BIRC3, BIRC5, BLK, BLNK, BLOC1S1, BLOC1S2,

BLOC1S4, BLOC1S5, BLOC1S6, BLVRA, BLZF1, BMF, BMP2K, BMP3, BMP6,

BMPR1A, BMPR1B, BMPR2, BMS1, BMX, BNIP1, BNIP3, BNIP3L, BOD1, BOLA1,

BOLA2B, BOLA3, BOP1, BORCS5, BORCS6, BORCS7, BORCS8, BPGM, BPHL,

BPIFA1, BPIFB1, BPIFB4, BPTF, BRAT1, BRCA1, BRCA2, BRCC3, BRD1, BRD2,

BRD8, BRD9, BRF1, BRF2, BRI3, BRI3BP, BRMS1, BRPF1, BRPF3, BRWD1, BSCL2,

BSDC1, BSG, BSPRY, BST1, BST2, BTAF1, BTBD1, BTBD10, BTBD11, BTBD19,

BTBD2, BTBD3, BTBD7, BTBD8, BTF3, BTF3L4, BTG1, BTG2, BTK, BTLA, BTN2A1,

BTN3A1, BTN3A2, BTNL9, BTRC, BUD13, BUD23, BZW1, BZW2, C10orf143, C10orf25,

C10orf67, C11orf1, C11orf16, C11orf21, C11orf24, C11orf45, C11orf65, C11orf68,

C11orf71, C11orf74, C11orf88, C11or97, C12orf10, C12orf4, C12orf43, C12orf45,

C12orf49, C12orf60, C12orf73, C12orf74, C13orf46, C14orf119, C15orf39, C15orf40,

C15orf48, C15orf62, C15orf65, C16orf54, C16orf58, C16orf70, C16orf72, C16orf74,

C16orf87, C16orf89, C16orf91, C17orf100, C17orf49, C17orf58, C17orf80, C17orf97,

C18orf21, C18orf25, C18orf32, C18orf54, C19orf25, C19orf38, C19orf47, C19orf53,

C19orf54, C19orf71, C1D, C1GALT1, C1GALT1C1, C1orf115, C1orf116, C1orf122,

C1orf131, C1orf141, C1orf158, C1orf159, C1orf162, C1orf189, C1orf194, C1orf198,

C1orf21, C1orf216, C1orf50, C1orf53, C1orf54, C1orf87, C1QA, C1QB, C1QC, C1QTNF6,

C1RL, C2, C20orf194, C20orf85, C20or96, C21or91, C2CD2L, C2orf15, C2orf42, C2orf49,

C2orf68, C2orf73, C2orf76, C2orf88, C2or92, C3, C3AR1, C3orf14, C3orf18, C3orf49,

C3orf62, C3orf67, C3orf84, C4A, C4B, C4orf19, C4orf3, C4orf46, C5AR1, C5AR2,

C5orf22, C5orf24, C5orf30, C5orf49, C5orf51, C5orf58, C6, C6orf120, C6orf132, C6orf136,

C6orf163, C6orf226, C6orf47, C6orf62, C6orf89, C7orf26, C7orf50, C7orf57, C8B, C8orf34,

C8orf37, C9orf116, C9orf129, C9orf135, C9orf139, C9orf152, C9orf16, C9orf24, C9orf64,

C9orf78, CA1, CA13, CA14, CA2, CA4, CA5B, CA8, CAAP1, CABCOCO1, CABIN1,

CABLES1, CABLES2, CABP4, CACHD1, CACNA1E, CACNA1F, CACNA1I,

CACNA2D1, CACNA2D2, CACNA2D3, CACNA2D4, CACNB1, CACTIN, CACUL1,

CACYBP, CAD, CADPS2, CALCOCO2, CALCR, CALHM2, CALHM5, CALHM6,

CALM1, CALM2, CALM3, CALU, CAMK1, CAMK1D, CAMK2D, CAMK2G,

CAMK2N1, CAMK4, CAMKK1, CAMKK2, CAMLG, CAMP, CAMSAP2, CAMTA1,

CAMTA2, CANT1, CAP1, CAP2, CAPN1, CAPN10, CAPN12, CAPN13, CAPN15,

CAPN2, CAPN3, CAPN5, CAPN7, CAPNS1, CAPRIN1, CAPS2, CAPSL, CAPZAI,

CAPZB, CARD11, CARD19, CARD6, CARD8, CARD9, CARF, CARHSP1, CARM1,

CARMIL1, CARMIL2, CARMIL3, CARNMT1, CARNS1, CASC1, CASC3, CASC4,

CASK, CASKIN2, CASP3, CASP4, CASP5, CASP7, CASP8, CASP8AP2, CASS4,

CASTOR2, CASZ1, CATSPER1, CATSPERB, CATSPERD, CAV3, CAVIN1, CAVIN2,

CAVIN4, CBFA2T2, CBFA2T3, CBL, CBLL1, CBR1, CBS, CBSL, CBWD6, CBX1, CBX3,

CBX4, CBX6, CBX7, CBY1, CC2D1A, CC2D1B, CC2D2A, CCAR1, CCAR2, CCDC102B,

CCDC106, CCDC107, CCDC110, CCDC112, CCDC113, CCDC117, CCDC124, CCDC125,

CCDC127, CCDC130, CCDC134, CCDC137, CCDC138, CCDCM1, CCDCM6, CCDC15,

CCDC158, CCDC159, CCDC160, CCDC167, CCDC17, CCDC170, CCDC171, CCDC178,

CCDC18, CCDC180, CCDC181, CCDC186, CCDC187, CCDC190, CCDC200, CCDC22,

CCDC25, CCDC28B, CCDC30, CCDC32, CCDC33, CCDC34, CCDC36, CCDC40,

CCDC51, CCDC57, CCDC58, CCDC6, CCDC60, CCDC61, CCDC65, CCDC66, CCDC69,

CCDC7, CCDC71, CCDC71L, CCDC74A, CCDC74B, CCDC78, CCDC80, CCDC81,

CCDC85B, CCDC85C, CCDC88A, CCDC88B, CCDC88C, CCDC89, CCDC9, CCDC90B,

CCDC91, CCDC92, CCDC97, CCDC9B, CCHCR1, CCL18, CCL2, CCL20, CCL23, CCL3,

CCL3L1, CCL4, CCL4L2, CCL5, CCL7, CCL8, CCM2, CCN1, CCN2, CCNB2, CCNB3,

CCND1, CCND2, CCND3, CCNDBP1, CCNE2, CCNF, CCNG2, CCNI, CCNJL, CCNK,

CCNL1, CCNL2, CCNO, CCNT1, CCNY, CCNYL1, CCP110, CCR1, CCR4, CCR5, CCR7,

CCRL2, CCS, CCSAP, CCSER2, CCT7, CCZ1B, CD101, CD14, CD160, CD164, CD180,

CD19, CD1A, CD1C, CD1D, CD2, CD200, CD22, CD226, CD24, CD244, CD247, CD27,

CD274, CD276, CD28, CD2AP, CD2BP2, CD300A, CD300C, CD300H, CD300LB, CD33,

CD36, CD37, CD3D, CD3E, CD3EAP, CD3G, CD4, CD40LG, CD44, CD46, CD47, CD48,

CD5, CD52, CD53, CD59, CD5L, CD6, CD68, CD69, CD7, CD72, CD79A, CD79B, CD80,

CD81, CD82, CD84, CD8A, CD8B, CD8B2, CD9, CD93, CD96, CD99, CD99L2, CDA,

CDADC1, CDAN1, CDC123, CDC14A, CDC14B, CDC20, CDC20B, CDC25A, CDC25B,

CDC26, CDC27, CDC34, CDC37, CDC37L1, CDC42BPA, CDC42BPB, CDC42EP1,

CDC42EP2, CDC42EP3, CDC42EP4, CDC42SE1, CDC42SE2, CDC5L, CDC6, CDC7,

CDC73, CDCA3, CDCA4, CDCA5, CDCA7L, CDCA8, CDCP1, CDH13, CDH23, CDH26,

CDHR3, CDIP1, CDIPT, CDK10, CDK11A, CDK11B, CDK13, CDK14, CDK16, CDK2,

CDK20, CDK2AP1, CDK4, CDK5R1, CDK5RAP2, CDK5RAP3, CDK6, CDK7, CDK9,

CDKAL1, CDKL5, CDKN1A, CDKN1C, CDKN2AIP, CDKN2B-AS1, CDKN2D, CDPF1,

CDR2, CDS1, CDS2, CDV3, CDYL, CDYL2, CEACAM1, CEACAM19, CEACAM3,

CEACAM4, CEACAM5, CEACAM6, CEACAM7, CEBPA, CEBPB, CEBPZ, CELF1,

CELF2, CELSR1, CELSR2, CELSR3, CEMIP, CEMIP2, CENPB, CENPBD1, CENPH,

CENPK, CENPL, CENPO, CENPP, CENPQ, CENPS, CENPW, CEP112, CEP126, CEP128,

CEP162, CEP170, CEP19, CEP192, CEP250, CEP290, CEP295NL, CEP350, CEP68,

CEP70, CEP76, CEP78, CEP83, CEP85, CEP85L, CEP89, CEP95, CERK, CERKL, CERS2,

CERS4, CERS5, CERS6, CERT1, CES2, CES3, CES4A, CETN2, CETN3, CFAP20,

CFAP221, CFAP298, CFAP300, CFAP36, CFAP410, CFAP43, CFAP44, CFAP45, CFAP47,

CFAP52, CFAP53, CFAP54, CFAP57, CFAP61, CFAP65, CFAP70, CFAP97D2, CFDP1,

CFH, CFL1, CFL2, CFLAR, CFP, CFTR, CGAS, CGGBP1, CGN, CGNL1, CHAF1A,

CHCHD1, CHCHD10, CHCHD3, CHCHD6, CHCHD7, CHD1, CHD2, CHD3, CHD4,

CHD6, CHD8, CHD9, CHDH, CHEK1, CHEK2, CHERP, CHFR, CHIC1, CHIC2, CHID1,

CHKB, CHL1, CHM, CHMP1A, CHMPIB, CHMP2A, CHMP2B, CHMP4A, CHMP4B,

CHMP4C, CHMP5, CHMP6, CHMP7, CHN2, CHP1, CHP2, CHPF, CHPF2, CHPT1,

CHRDL2, CHRFAM7A, CHRNA2, CHRNA3, CHRNA7, CHST10, CHST11, CHST12,

CHST13, CHST15, CHST2, CHST4, CHST6, CHST9, CHSY1, CHTF18, CHTF8, CHTOP,

CHURC1, CIAO1, CIAO2A, CIAO3, CIAPIN1, CIC, CIITA, CIPC, CIR1, CIRBP, CISD1,

CITED4, CIZ1, CKAP2, CKAP2L, CKAP4, CKAP5, CKB, CKLF, CKMT1A, CKMT1B,

CKMT2, CKS2, CLASP1, CLASRP, CLC, CLCA2, CLCA4, CLCF1, CLCN2, CLCN3,

CLCN5, CLCN6, CLCN7, CLDN1, CLDN10, CLDN12, CLDN15, CLDN16, CLDN18,

CLDN23, CLDN3, CLDN4, CLDN5, CLDN9, CLDND1, CLDND2, CLEC11A, CLEC12A,

CLEC12B, CLEC17A, CLEC18A, CLEC1B, CLEC2D, CLEC4A, CLEC4D, CLEC7A,

CLGN, CLIC2, CLIC3, CLIC4, CLIC5, CLIC6, CLIP1, CLIP2, CLIP4, CLK1, CLK2, CLK3,

CLN3, CLN5, CLN6, CLOCK, CLP1, CLPP, CLPTM1, CLPTM1L, CLSTN1, CLSTN2,

CLSTN3, CLTA, CLTC, CLTCL1, CLU, CLUH, CLYBL, CMC1, CMC2, CMIP, CMPK1,

CMSS1, CMTM2, CMTM3, CMTM4, CMTM5, CMTM6, CMTR1, CMTR2, CMYA5,

CNBP, CNFN, CNGA4, CNIH1, CNIH4, CNKSR2, CNKSR3, CNN2, CNN3, CNNM3,

CNNM4, CNOT1, CNOT10, CNOT11, CNOT2, CNOT4, CNOT8, CNP, CNPPD1, CNPY3,

CNPY4, CNR2, CNRIP1, CNTD1, CNTLN, CNTN1, CNTN5, CNTNAP1, CNTNAP2,

CNTROB, COA3, COA4, COA6, COA7, COA8, COASY, COBL, COBLL1, COCH, COG1,

COG2, COG4, COG5, COG6, COL11A2, COL15A1, COL17A1, COL18A1, COL19A1,

COL1A1, COL26A1, COL4A4, COL5A3, COL6A2, COL8A1, COL9A2, COL9A3,

COLCA1, COLEC12, COLGALT1, COLGALT2, COLQ, COMMD1, COMMD10,

COMMD2, COMMD6, COMMD9, COMTD1, COP1, COPA, COPB2, COPE, COPG2,

COPRS, COPS3, COPS5, COPS7B, COPS9, COPZ1, COQ2, COQ6, COQ7, COQ8A,

COQ8B, CORO1A, CORO1B, CORO1C, CORO7, COTL1, COX14, COX17, COX19,

COX20, COX5A, COX6A1, COX6B1, COX6C, COX7A1, COX7B, COX7C, COX8A, CP,

CPAMD8, CPD, CPE, CPED1, CPLANE1, CPM, CPNE1, CPNE2, CPNE5, CPOX,

CPPED1, CPQ, CPSF1, CPSF2, CPSF3, CPSF4, CPSF6, CPT1A, CPT1B, CPTP, CPVL,

CR1, CR1L, CR2, CRACR2A, CRADD, CRAMP1, CRAT, CRCP, CRCT1, CREB3,

CREB3L1, CREB3L4, CREB5, CREBBP, CREBL2, CREBZF, CREG1, CRELD1, CREM,

CRHBP, CRIM1, CRIP1, CRIPT, CRISP3, CRISPLD2, CRK, CRMP1, CRNDE, CRNKL1,

CRNN, CROCC, CRTAC1, CRTAM, CRTAP, CRTC1, CRTC2, CRY2, CRYBB1,

CRYBG1, CRYBG2, CRYBG3, CRYL1, CRYM, CRYZ, CS, CSAD, CSE1L, CSF2RA,

CSF2RB, CSF3R, CSGALNACT1, CSGALNACT2, CSK, CSMD1, CSNK1A1, CSNK1D,

CSNK1E, CSNK1G1, CSNK1G2, CSNK1G3, CSPP1, CSRNP1, CSRNP2, CSRNP3,

CSRP2, CST3, CSTA, CSTB, CSTF1, CSTF3, CT83, CTBP1, CTBP1-AS, CTBS, CTC1,

CTDP1, CTDSP1, CTDSP2, CTIF, CTLA4, CTNNA1, CTNNAL1, CTNNB1, CTNNBIP1,

CTNND1, CTPS1, CTPS2, CTR9, CTSA, CTSC, CTSD, CTSF, CTSK, CTSL, CTSS,

CTSW, CTSZ, CTTNBP2, CTTNBP2NL, CTU2, CUBN, CUEDC1, CUEDC2, CUL2,

CUL3, CUL5, CUL7, CUL9, CUTC, CWC15, CWC22, CWC25, CWC27, CWF19L1,

CWF19L2, CX3CR1, CXADR, CXCL1, CXCL10, CXCL11, CXCL12, CXCL16, CXCL17,

CXCL2, CXCL3, CXCL6, CXCL9, CXCR1, CXCR3, CXCR4, CXorf38, CXorf40A,

CXorf40B, CXorf56, CXXC1, CXXC4, CXXC5, CYB561A3, CYB561D1, CYB561D2,

CYB5A, CYB5D2, CYB5R1, CYB5R2, CYB5R3, CYB5R4, CYB5RL, CYBA, CYBB,

CYBC1, CYBRD1, CYC1, CYFIP2, CYHR1, CYLD, CYP20A1, CYP27A1, CYP2B6,

CYP2E1, CYP2F1, CYP2J2, CYP2R1, CYP2S1, CYP39A1, CYP3A4, CYP3A5, CYP4B1,

CYP4F3, CYP4V2, CYP4X1, CYSLTR2, CYSRT1, CYSTM1, CYTH1, CYTH2, CYTH4,

CYTIP, CYYR1, CZIB, D2HGDH, DAAM1, DAAM2, DAB1, DAB2, DAB2IP, DAG1,

DAGLB, DALRD3, DAPK1, DAPK2, DAPK3, DARS2, DAZAP1, DAZAP2, DBF4B, DBI,

DBN1, DBNDD1, DBNL, DBP, DBT, DCAF11, DCAF12, DCAF13, DCAF15, DCAF16,

DCAF8, DCAKD, DCBLD1, DCBLD2, DCDC1, DCDC2, DCHS1, DCLK2, DCLRE1B,

DCLRE1C, DCP1B, DCSTAMP, DCTN1, DCTN2, DCTN3, DCTN4, DCTN6, DCTPP1,

DCUN1D3, DCUN1D4, DCUN1D5, DCXR, DDA1, DDAH1, DDB1, DDB2, DDC,

DDHD1, DDI2, DDIAS, DDIT4, DDO, DDOST, DDR1, DDR2, DDRGK1, DDX1, DDX10,

DDX11, DDX17, DDX18, DDX19A, DDX19B, DDX21, DDX23, DDX24, DDX27, DDX31,

DDX39A, DDX39B, DDX3X, DDX3Y, DDX41, DDX42, DDX47, DDX49, DDX5, DDX51,

DDX52, DDX54, DDX55, DDX56, DDX58, DDX59, DDX60, DEAF1, DEF6, DEF8,

DEFA1, DEFA1B, DEFA3, DEFB1, DELE1, DENND11, DENND1A, DENND1B,

DENND1C, DENND2B, DENND3, DENND4A, DENND4B, DENND4C, DENND5A,

DENND6A, DENND6B, DEPDC5, DEPP1, DEPTOR, DERL1, DERL2, DERL3, DESI2,

DET1, DEUP1, DEXI, DFFA, DFFB, DGAT1, DGAT2, DGCR2, DGCR6, DGCR8, DGKA,

DGKB, DGKD, DGKQ, DGKZ, DGLUCY, DGUOK, DHCR7, DHDH, DHFR, DHODH,

DHPS, DHRS1, DHRS12, DHRS13, DHRS3, DHRS4, DHRS7, DHRS9, DHRSX, DHTKD1,

DHX15, DHX16, DHX30, DHX32, DHX34, DHX37, DHX38, DHX40, DHX57, DHX9,

DIABLO, DIAPH1, DICER1, DIDO1, DIO2, DIP2A, DIP2C, DIPK1A, DIPK1B, DIPK2A,

DIS3, DIS3L2, DISP1, DIXDC1, DKC1, DKK1, DLC1, DLD, DLEC1, DLG3, DLG5,

DLST, DMAC1, DMAP1, DMBT1, DMD, DMKN, DMPK, DMRT3, DMRTA1, DMTN,

DMWD, DMXL1, DMXL2, DNAAF1, DNAH1, DNAH10, DNAH11, DNAH12, DNAH14,

DNAH17, DNAH2, DNAH3, DNAH5, DNAH6, DNAH7, DNAH8, DNAH9, DNAH,

DNAJA1, DNAJA3, DNAJB11, DNAJB12, DNAJB13, DNAJB14, DNAJB2, DNAJB4,

DNAJB6, DNAJB9, DNAJC10, DNAJC14, DNAJC15, DNAJC16, DNAJC17, DNAJC18,

DNAJC19, DNAJC21, DNAJC5, DNAJC5B, DNAJC7, DNAJC8, DNAJC9, DNAL1,

DNALI1, DNASE1, DNASE1L1, DNASE2B, DNHD1, DNM1, DNM1L, DNM2, DNM3,

DNMBP, DNPEP, DNPH1, DNTTIP1, DNTTIP2, DOC2A, DOCK1, DOCK10, DOCK2,

DOCK4, DOCK5, DOCK7, DOHH, DOK2, DOK3, DOK6, DOLK, DOT1L, DPEP2, DPF2,

DPF3, DPH1, DPH2, DPH3, DPH5, DPH7, DPM1, DPM2, DPM3, DPP3, DPP7, DPP9,

DPT, DPY19L3, DPY30, DPYSL2, DPYSL3, DR1, DRAM1, DRAP1, DRC1, DRG2,

DROSHA, DSC2, DSC3, DSE, DSG2, DSN1, DSP, DST, DSTN, DSTYK, DTNA, DTNB,

DTWD1, DTWD2, DTX1, DTX3, DTX3L, DTX4, DUOX1, DUOX2, DUOXA1, DUOXA2,

DUS1L, DUS2, DUS3L, DUSP1, DUSP11, DUSP14, DUSP2, DUSP22, DUSP23, DUSP28,

DUSP3, DUSP6, DUSP7, DUSP8, DUXAP9, DVL1, DVL2, DVL3, DXO, DYM,

DYNC1H1, DYNC1I2, DYNC1LI2, DYNC2H1, DYNC2LI1, DYNLL1, DYNLL2,

DYNLRB1, DYNLRB2, DYNLT1, DYNLT3, DYRK1B, DYRK4, DYSF, DZANK1,

DZIP1L, DZIP3, E2F1, E2F2, E2F3, E2F4, E2F7, E4F1, EAF1, EAPP, EARS2, EBAG9,

EBF1, EBLN2, EBNA1BP2, EBP, EBPL, ECE1, ECH1, ECHDC2, ECHS1, ECM1, ECPAS,

ECRG4, ECSIT, ECT2, ECT2L, EDAR, EDC3, EDC4, EDEM1, EDEM2, EDEM3, EDN1,

EDN2, EDNRA, EEA1, EEF1AKMT1, EEF1AKMT3, EEF1B2, EEFID, EEF2, EFCAB1,

EFCAB10, EFCAB11, EFCAB14, EFCAB6, EFCAB7, EFEMP1, EFHB, EFHD1, EFHD2,

EFL1, EFNA1, EFR3A, EFTUD2, EGF, EGFL6, EGFL7, EGFR, EGLN1, EGLN2, EGOT,

EGR1, EGR2, EGR3, EHBP1, EHBP1L1, EHD1, EHD2, EHD3, EHD4, EHF, EHHADH,

EHMT1, EHMT2, EID1, EIF1, EIF1AX, EIF1B, EIF2AK1, EIF2AK3, EIF2B2, EIF2B3,

EIF2B4, EIF2S1, EIF2S2, EIF2S3, EIF2S3B, EIF3B, EIF3C, EIF3CL, EIF3D, EIF3G, EIF3I,

EIF3L, EIF3M, EIF4A1, EIF4B, EIF4E, EIF4E3, EIF4EBP1, EIF4G1, EIF4G2, EIF4H,

EIF5A, EIF5AL1, EIF5B, EIF6, EIPR1, ELAC1, ELAC2, ELF2, ELF3, ELF4, ELF5, ELK1,

ELK4, ELL, ELL2, ELMO1, ELMO2, ELMO3, ELMOD1, ELMOD2, ELMOD3,

ELMSAN1, ELOA, ELOC, ELOVL1, ELOVL5, ELP3, ELP4, ELP5, ELP6, EMB, EMC1,

EMC10, EMC2, EMC8, EMC9, EMD, EME2, EMG1, EMID1, EMILIN2, EML1, EML2,

EML3, EML4, EML6, EMP2, EMP3, EMSY, ENAH, ENC1, ENDOD1, ENGASE, ENKUR,

ENO1, ENO2, ENO3, ENOPH1, ENPP2, ENPP3, ENPP5, ENSA, ENTPD1, ENTPD3,

ENTPD4, ENTPD6, EOGT, EP400, EPAS1, EPB41, EPB41L1, EPB41L2, EPB41L3,

EPB41L4A, EPB41L4B, EPB41L5, EPB42, EPC2, EPCAM, EPHA1, EPHA2, EPHB6,

EPHX2, EPM2AIP1, EPN1, EPN3, EPOR, EPPIN, EPPK1, EPS15, EPS15L1, EPS8, EQTN,

ERAL1, ERAP1, ERBB2, ERBB3, ERBB4, ERBIN, ERC1, ERCC1, ERCC2, ERCC3,

ERCC5, ERCC6L2, ERCC8, EREG, ERF, ERFE, ERFL, ERG, ERG28, ERGIC1, ERGIC2,

ERH, ERI1, ERI2, ERICH1, ERICH3, ERICH5, ERMAP, ERMN, ERN1, ERO1A, ERP29,

ERRFI1, ERV3-1, ESCO1, ESD, ESF1, ESPN, ESRP1, ESRP2, ESRRA, ESRRG, ESS2,

ESYT1, ESYT2, ETFDH, ETFRF1, ETNK1, ETS1, ETV2, ETV3, ETV5, EVA1B, EVI2A,

EVI5, EVI5L, EVL, EWSR1, EXD3, EXOC1, EXOC3, EXOC5, EXOC6B, EXOC7, EXOG,

EXOSC1, EXOSC10, EXOSC2, EXOSC4, EXOSC5, EXPH5, EXT2, EXTL3, EYA1, EYA2,

EYA3, EYA4, EYS, EZH1, EZH2, EZR, F11R, F12, F13A1, F2R, F2RL1, F2RL2, F2RL3,

F3, F5, F8A2, FA2H, FAAH, FAAP100, FAAP20, FABP3, FABP4, FABP5, FABP6,

FADS1, FADS2, FADS3, FAF1, FAF2, FAH, FAHD2A, FAHD2B, FAIM, FAM102A,

FAM102B, FAM104B, FAM106A, FAM107A, FAM107B, FAM110A, FAM110C,

FAM114A1, FAM117A, FAM117B, FAM118A, FAM118B, FAM120A, FAM120AOS,

FAM120B, FAM120C, FAM122B, FAM122C, FAM135A, FAM13A, FAM153A,

FAM153B, FAM156A, FAM156B, FAM160A1, FAM160A2, FAM160B1, FAM160B2,

FAM162A, FAM166B, FAM166C, FAM168A, FAM168B, FAM169A, FAM174A,

FAM174C, FAM177A1, FAM183A, FAM184A, FAM185A, FAM186B, FAM189B,

FAM193B, FAM199X, FAM200A, FAM204A, FAM209A, FAM20B, FAM210A,

FAM210B, FAM214A, FAM214B, FAM216B, FAM217B, FAM219A, FAM219B,

FAM220A, FAM222A, FAM222B, FAM229A, FAM229B, FAM234A, FAM3A, FAM3B,

FAM3D, FAM47E, FAM49A, FAM50A, FAM53B, FAM53C, FAM71F2, FAM72A,

FAM72B, FAM72C, FAM72D, FAM78A, FAM81B, FAM83B, FAM83D, FAM83G,

FAM89A, FAM8A1, FAM92A, FAM92B, FAM98C, FANCA, FANCC, FANCD2, FANCI,

FANK1, FAP, FAR1, FARP1, FARP2, FASN, FASTK, FASTKD3, FASTKD5, FAT1,

FAT3, FAU, FAXDC2, FBH1, FBLN2, FBLN5, FBN2, FBP1, FBRS, FBRSL1, FBXL12,

FBXL13, FBXL16, FBXL19, FBXL2, FBXL20, FBXL22, FBXL5, FBXL6, FBXL7, FBXL8,

FBX025, FBX028, FBX03, FBXO30, FBXO31, FBXO33, FBXO34, FBXO36, FBXO41,

FBXO42, FBXO46, FBXO48, FBXO6, FBXO7, FBXO8, FBXO9, FBXW10, FBXW2,

FBXW4, FBXW5, FBXW7, FBXW8, FCAR, FCER1A, FCERIG, FCER2, FCF1, FCGBP,

FCGR1A, FCGR1B, FCGR2A, FCGR3A, FCGRT, FCHO1, FCHO2, FCHSD1, FCHSD2,

FCMR, FCN1, FCN2, FCRL1, FCRL2, FCRL3, FCRL6, FCRLA, FCSK, FDCSP, FDPS,

FDX1, FECH, FEM1A, FEN1, FER, FER1L6, FERMT1, FERMT2, FERMT3, FES, FFAR4,

FGD2, FGD3, FGD4, FGD5, FGD6, FGF14, FGF20, FGFBP2, FGFR1, FGFR1OP2, FGFR2,

FGFR3, FGGY, FGL2, FGR, FHAD1, FHL1, FHL3, FHOD1, FICD, FILIP1, FILIPIL, FIS1,

FIZ1, FKBP11, FKBP15, FKBP1A, FKBP2, FKBP8, FKBPL, FKRP, FLACC1, FLCN, FLG,

FLG2, FLU, FLII, FLNA, FLOT2, FLRT3, FLT1, FLT3, FLT3LG, FLT4, FLVCR2,

FLYWCH1, FMNL1, FMNL2, FMO2, FMO3, FMO4, FMO5, FMOD, FMR1, FN1,

FNBP1L, FNBP4, FNDC10, FNDC3A, FNDC3B, FNIP1, FNIP2, FOCAD, FOLH1, FOLR1,

FOLR3, FOPNL, FOS, FOSB, FOSL1, FOSL2, FOXA1, FOXA3, FOXD2-AS1, FOXI2,

FOXH, FOXJ2, FOXJ3, FOXK1, FOXK2, FOXM1, FOXN1, FOXN3, FOXO3, FOXO4,

FOXP2, FOXP3, FOXQ1, FOXRED1, FPGS, FPGT, FPR1, FPR3, FRA10AC1, FRAT1,

FRAT2, FREM2, FRG1, FRK, FRMD4A, FRMD4B, FRMD5, FRMD6, FRMD8, FRMPD3,

FRRS1, FRS2, FRY, FRYL, FSCN1, FSD1, FSTL3, FTCDNL1, FTL, FTO, FTSJ1, FUBP1,

FUCA1, FUCA2, FUNDC1, FUOM, FURIN, FUS, FUT10, FUT11, FUT2, FUT3, FUT4,

FUT7, FUZ, FXR2, FXYD3, FXYD5, FYB2, FYCO1, FYN, FZD1, FZD5, FZD6, FZD7,

FZR1, GOS2, G6PC3, G6PD, GAA, GAB2, GABARAP, GABARAPL1, GABBR1, GABPA,

GABPB2, GABRB2, GABRP, GABRR2, GADD45B, GADD45G, GAK, GALE, GALK1,

GALNS, GALNT1, GALNT10, GALNT12, GALNT2, GALNT5, GALT, GANAB, GAPDH,

GAREM1, GAREM2, GARNL3, GART, GAS2L1, GAS2L3, GAS6, GATA1, GATA2,

GATA3, GATAD1, GATAD2A, GATD1, GATD3A, GATD3B, GATM, GBA2, GBE1,

GBF1, GBGT1, GBP1, GBP3, GBP6, GCA, GCC1, GCC2, GCDH, GCFC2, GCLM, GCN1,

GCNA, GCNT2, GCNT3, GCNT7, GCSH, GDA, GDAP1, GDAP2, GDF11, GDF15, GDF9,

GDI1, GDPD5, GEMIN4, GEMIN5, GEMIN6, GET1, GET3, GET4, GFI1, GFHB, GFOD1,

GFPT1, GFRA2, GGA1, GGA3, GGCX, GGPS1, GGT1, GGT6, GGT7, GHDC, GHITM,

GIGYF1, GIMAP4, GIMAP5, GIMAP7, GIN1, GINM1, GINS2, GINS3, GINS4, GIPC3,

GIPR, GIT1, GJB3, GJB5, GK, GK5, GKN2, GLB1L2, GLB1L3, GLCE, GLG1, GLI3,

GLI4, GLIPR1, GLIS3, GLO1, GLRX, GLRX2, GLRX3, GLRX5, GLT1D1, GLTP,

GLUD1, GLUD2, GLUL, GLYATL2, GLYCTK, GLYR1, GM2A, GMDS, GMIP, GMNC,

GMNN, GMPPB, GMPR, GMPR2, GNA11, GNA14, GNAI1, GNAI2, GNAI3, GNAL,

GNAO1, GNAZ, GNB1, GNB1L, GNB2, GNB4, GNB5, GNG12, GNG2, GNG5, GNG7,

GNGT2, GNL1, GNL2, GNLY, GNPDA1, GNPDA2, GNPNAT1, GNPTAB, GNPTG,

GOLGA1, GOLGA2, GOLGA3, GOLGA4, GOLGA5, GOLGA6L10, GOLGA7B,

GOLGA8A, GOLGA8B, GOLGA8N, GOLGA8R, GOLGB1, GOLIM4, GOLM1, GOLPH3,

GOLPH3L, GOLT1B, GORAB, GORASP1, GOSR1, GP1BA, GP5, GP6, GP9, GPAA1,

GPALPP1, GPANK1, GPAT2, GPAT3, GPAT4, GPATCH2, GPATCH2L, GPATCH8,

GPBAR1, GPBP1, GPBP1L1, GPC2, GPC4, GPCPD1, GPD1, GPD1L, GPD2, GPER1,

GPN2, GPN3, GPNMB, GPR107, GPR108, GPR132, GPR137, GPR137B, GPR141,

GPR146, GPR153, GPR160, GPR162, GPR171, GPR174, GPR176, GPR183, GPR22, GPR3,

GPR34, GPR35, GPR45, GPR55, GPR65, GPR68, GPR75, GPR82, GPR84, GPR85, GPR87,

GPR89A, GPR89B, GPRASP2, GPRC5A, GPRIN3, GPS1, GPS2, GPSM1, GPSM3, GPX2,

GPX3, GPX8, GRAMD1A, GRAMD1C, GRAMD2A, GRAMD2B, GRAMD4, GRAP,

GRAP2, GRAPL, GRASP, GRB10, GRB2, GRB7, GREB1, GRHL1, GRHL2, GRHL3,

GRHPR, GRIK2, GRIN2C, GRIN3A, GRINA, GRIP1, GRIPAP1, GRK2, GRK3, GRK5,

GRK6, GRM2, GRN, GRWD1, GSDMA, GSDMB, GSDMC, GSDMD, GSE1, GSK3A,

GSK3B, GSKIP, GSTA1, GSTA2, GSTA3, GSTA5, GSTCD, GSTK1, GSTM1, GSTM2,

GSTM3, GST01, GSTT2, GSTT2B, GSTZ1, GTDC1, GTF2A1, GTF2B, GTF2E1, GTF2F1,

GTF2F2, GTF2H1, GTF2H2, GTF2H2C, GTF2H5, GTF2IRD1, GTF3A, GTF3C1, GTF3C2,

GTF3C4, GTF3C5, GTF3C6, GTPBP1, GTPBP3, GTPBP6, GTSF1, GUCD1, GUCY1B1,

GUCY2C, GUK1, GULP1, GUSB, GXYLT1, GXYLT2, GYPA, GYPB, GYPC, GYS1,

GZF1, GZMB, GZMH, GZMK, GZMM, H1-0, H1-1, H1-10, H1-3, H1-4, H1-5, H19,

H2AC11, H2AC13, H2AC14, H2AC16, H2AC18, H2AC19, H2AC20, H2AC21, H2AC8,

H2AJ, H2AW, H2AZ1, H2AZ2, H2BC12, H2BC18, H2BC7, H3-3A, H3-3B, H3-5, H3C10,

H3C12, H3C6, H4C12, H4C13, H4C14, H4C15, H4C2, H4C3, H4C5, H4C9, H6PD,

HACD3, HADH, HADHA, HAGH, HAGHL, HAL, HAPLN3, HARB11, HARS1, HARS2,

HAT1, HAUS2, HAUS3, HAUS4, HAUS5, HAUS8, HAVCR2, HAX1, HBA1, HBA2, HBB,

HBD, HBEGF, HBG1, HBG2, HBM, HBP1, HBQ1, HBS1L, HCAR2, HCFC1, HCFC2,

HCK, HCLS1, HDAC1, HDAC10, HDAC11, HDAC3, HDAC4, HDAC5, HDAC6, HDAC7,

HDAC8, HDAC9, HDDC2, HDGF, HDGFL2, HDGFL3, HDHD2, HDHD5, HDX,

HEATR1, HEATR3, HEATR5A, HEATR6, HECA, HECTD1, HECTD2, HECTD4,

HECW2, HELQ, HELZ2, HEMGN, HEMK1, HERC2, HERC4, HERC6, HERPUD1,

HERPUD2, HES1, HES2, HESX1, HEXD, HEXIM1, HEXIM2, HEY1, HEY2, HFE, HGH1,

HGS, HGSNAT, HHLA2, HIBADH, HIBCH, HIC1, HIC2, HIF1AN, HIGD1A, HIGD2A,

HIKESHI, HILPDA, HINT1, HINT3, HIP1R, HIPK1, HIPK2, HIRIP3, HIVEP1, HJURP,

HJV, HK1, HK3, HLA-A, HLA-B, HLA-C, HLA-DOB, HLA-DPA1, HLA-DQA2, HLA-

DQB2, HLA-E, HLA-F, HLA-G, HLCS, HLF, HLTF, HLX, HM13, HMBOX1, HMBS,

HMCES, HMG20B, HMGA1, HMGB1, HMGB2, HMGCR, HMGCS2, HMGN3, HMGN4,

HMGN5, HMGXB3, HNF1B, HNMT, HNRNPA0, HNRNPA1, HNRNPA1L2,

HNRNPA2B1, HNRNPA3, HNRNPAB, HNRNPC, HNRNPD, HNRNPH1, HNRNPH2,

HNRNPH3, HNRNPK, HNRNPL, HNRNPM, HNRNPR, HNRNPU, HNRNPUL1,

HOMER1, HOMER2, HOMEZ, HOOK1, HOOK3, HOPX, HOXB2, HOXB3, HOXB6,

HPCAL1, HPCAL4, HPGD, HPGDS, HPS1, HPS4, HPS5, HPS6, HPSE, HRH2, HS1BP3,

HS2ST1, HS3ST1, HS3ST2, HS3ST3B1, HS6ST1, HSBP1, HSBP1L1, HSD11B1,

HSD17B1, HSD17B14, HSD17B4, HSD3B7, HSDL1, HSDL2, HSF1, HSF2, HSF4, HSH2D,

HSP90AA1, HSP90AB1, HSPA1A, HSPA1B, HSPA4, HSPA4L, HSPA5, HSPA8, HSPB1,

HSPB11, HSPB8, HSPBAP1, HSPBP1, HSPD1, HSPE1, HSPG2, HSPH1, HTATIP2,

HTATSF1, HTN1, HTN3, HTRA2, HTRA3, HTRA4, HTT, HUNK, HVCN1, HYDIN,

HYKK, HYOU1, HYPK, IAH1, IARS2, IBA57, IBTK, ICAM1, ICAM2, ICAM3, ICAM5,

ICE2, ICK, ICMT, ICOSLG, ID1, ID2, ID3, ID4, IDH1, IDH2, IDH3A, IDH3B, IDO1,

IDUA, IER2, IER5, IER5L, IFFO1, IFFO2, IFI16, IFI27L2, IFI6, IFIH1, IFITI, IFIT2, IFIT3,

IFIT5, IFITM1, IFITM3, IFNG, IFNGR2, IFRD1, IFRD2, IFT22, IFT43, IFT74, IFT81,

IGF1, IGF1R, IGF2BP3, IGF2R, IGFBP3, IGFBP5, IGFLR1, IGHMBP2, IGIP, IGLL5,

IGSF10, IGSF3, IGSF6, IGSF8, IGSF9B, IK, IKBKB, IKBKE, IKBKG, IKZF1, IKZF2,

IKZF3, IKZF5, IL10RA, IL11RA, IL12A, IL12RB1, IL12RB2, IL16, IL17C, IL17RA,

IL17RB, IL17RC, IL17RD, IL18, IL18RAP, IL19, IL1A, IL1B, IL1R1, IL1R2, IL1RN,

IL20RA, IL20RB, IL21R, IL22RA1, IL24, IL26, IL27RA, IL2RA, IL2RB, IL2RG, IL32,

IL33, IL36B, IL36G, IL36RN, IL4I1, IL4R, IL5RA, IL6R, IL7R, ILF2, ILF3, ILK, ILKAP,

ILRUN, ILVBL, IMMT, IMPA1, IMPA2, IMPACT, IMPAD1, IMPDH1, INAFM1, INCA1,

INF2, ING1, ING2, ING3, ING4, ING5, INHBA, INIP, INKA1, INKA2, INO80, INO80C,

INO80D, INO80E, INPP4A, INPP5A, INPP5B, INPP5D, INPP5F, INPP5K, INPPL1, INSL6,

INSR, INSYN2A, INTS1, INTS11, INTS12, INTS2, INTS3, INTS5, INTS6, INTS6L,

INTS7, INTS8, INTS9, INTU, INVS, IP6K1, IP6K2, IPCEF1, IPO11, IPO13, IPO7, IPO8,

IPPK, IQCA1, IQCE, IQCG, IQCH, IQCK, IQCN, IQGAP3, IQSEC1, IQUB, IRAK1,

IRAK1BP1, IRAK2, IRAK3, IRF1, IRF2, IRF2BP1, IRF2BP2, IRF2BPL, IRF3, IRF5, IRF6,

IRF8, IRF9, IRGQ, IRS1, IRS2, IRX3, ISCA2, ISG15, ISG20, ISG20L2, ISL1, ISOC2, IST1,

ISY1, ISYNA1, ITCH, ITGA10, ITGA2, ITGA2B, ITGA3, ITGA4, ITGA5, ITGA6, ITGA7,

ITGA8, ITGAL, ITGAM, ITGAV, ITGAX, ITGB1, ITGB2, ITGB3, ITGB4, ITGB6, ITGB7,

ITGB8, ITIH5, ITK, ITM2A, ITM2B, ITM2C, ITPA, ITPKB, ITPR2, ITPR3, ITPRID2,

ITPRIP, ITPRIPL1, ITPRIPL2, ITSN1, IWS1, IYD, IZUMO4, JADE1, JADE2, JADE3,

JAG1, JAGN1, JAK1, JAK2, JAK3, JAKMIP1, JAKMIP2, JAM3, JAML, JDP2, JHY,

JMJD1C, JMJD6, JMJD7-PLA2G4B, JMJD8, JOSD1, JPH4, JPT1, JPT2, JRK, JTB, JUN,

JUNB, JUND, KALRN, KANK2, KANSL1-AS1, KANSL1L, KARS1, KAT2A, KAT5,

KAT7, KAT8, KATNAL1, KATNAL2, KATNB1, KATNBL1, KAZALD1, KBTBD11,

KBTBD2, KBTBD3, KBTBD8, KCNA10, KCNA2, KCNAB1, KCNAB2, KCNAB3,

KCNC4, KCND1, KCNE1B, KCNH2, KCNH3, KCNH8, KCNIP2, KCNJ1, KCNJ10,

KCNJ13, KCNJ16, KCNJ5, KCNK1, KCNK13, KCNK6, KCNK7, KCNMA1, KCNMB2,

KCNN4, KCNQ1, KCNQ3, KCTD1, KCTD11, KCTD12, KCTD13, KCTD17, KCTD20,

KCTD7, KCTD9, KDELR1, KDELR2, KDELR3, KDF1, KDM2A, KDM3B, KDM4B,

KDM4C, KDM5A, KDM5C, KDM5D, KDM6A, KDM6B, KDM7A, KEL, KHDC4,

KHDRBS1, KHDRBS3, KHNYN, KHSRP, KIAA0100, KIAA0232, KIAA0319L,

KIAA0355, KIAA0513, KIAA0556, KIAA0586, KIAA0825, KIAA0895, KIAA0895L,

KIAA0930, KIAA1143, KIAA1211L, KIAA1217, KIAA1324, KIAA1328, KIAA1522,

KIAA1614, KIAA1671, KIAA1841, KIAA1958, KIAA2012, KIAA2013, KIAA2026,

KIF16B, KIF20B, KIF21A, KIF21B, KIF22, KIF24, KIF26A, KIF2C, KIF3A, KIF3B,

KIF5B, KIFBP, KIFC2, KIN, KIT, KIZ, KLC1, KLC2, KLC3, KLC4, KLF1, KLF10,

KLF11, KLF12, KLF13, KLF15, KLF16, KLF2, KLF4, KLF5, KLF6, KLF9, KLHDC2,

KLHDC3, KLHDC4, KLHDC8A, KLHDC8B, KLHDC9, KLHL11, KLHL15, KLHL17,

KLHL18, KLHL21, KLHL22, KLHL25, KLHL26, KLHL28, KLHL29, KLHL3, KLHL36,

KLHL41, KLHL6, KLK1, KLK10, KLK11, KLK13, KLRB1, KLRC2, KLRC3, KLRD1,

KLRF1, KLRG1, KLRK1, KMO, KMT2B, KMT2C, KMT2D, KMT2E, KMT5C, KNDC1,

KPNA1, KPNA3, KPNA4, KPNA6, KPNA7, KPRP, KPTN, KRBA1, KRBOX4, KRCC1,

KRIT1, KRT1, KRT10, KRT13, KRT15, KRT16, KRT17, KRT18, KRT19, KRT23, KRT4,

KRT5, KRT6A, KRT6B, KRT6C, KRT7, KRT72, KRT73, KRT78, KRT8, KRT80,

KRTCAP2, KSR1, KTI12, KXD1, KYAT3, KYNU, L3MBTL1, L3MBTL2, LACC1,

LACTB, LACTB2, LAD1, LAIR2, LAMA1, LAMA2, LAMA3, LAMA5, LAMB1, LAMB2,

LAMB3, LAMC1, LAMP3, LAMTOR1, LAMTOR2, LAMTOR3, LAMTOR4, LAMTOR5,

LANCL3, LAP3, LAPTM5, LARGE2, LARP1B, LARP4, LARP7, LARS1, LARS2, LAS1L,

LASP1, LAT, LAT2, LBH, LBHD1, LBR, LCA5, LCA5L, LCAT, LCE3A, LCE3D, LCE3E,

LCK, LCLAT1, LCMT2, LCN2, LCORL, LCP1, LDB1, LDHAL6B, LDHB, LDHD, LDLR,

LDLRAD1, LDLRAD2, LDLRAP1, LDOC1, LEF1, LEKR1, LEMD2, LEMD3, LENG8,

LEO1, LEP, LEPROT, LEPROTL1, LETM1, LETM2, LETMD1, LFNG, LGALS2,

LGALS3, LGALS9B, LGMN, LGR4, LGR6, LHFPL2, LHFPL6, LHPP, LHX4, LIFR, LIG1,

LIG3, LIG4, LILRA1, LILRA2, LILRA5, LILRA6, LILRB1, LILRB2, LILRB4, LIMA1,

LIMCH1, LIMD1, LIMD2, LIMK1, LIMK2, LIMS1, LIN37, LIN54, LIN7C, LIN9,

LINC01410, LINC02701, LINGO3, LIPE, LITAF, LKAAEAR1, LLGL1, LLGL2, LMAN2,

LMBR1, LMBR1L, LMCD1, LMF1, LMF2, LMLN, LMNA, LMNTD1, LMNTD2, LMO3,

LMO4, LMO7, LMTK2, LMTK3, LNP1, LNX1, LONP1, LONRF2, LOX, LOXHD1,

LOXL1, LPAR1, LPAR2, LPAR3, LPAR5, LPCAT1, LPCAT3, LPCAT4, LPGAT1, LPIN2,

LPIN3, LPL, LPXN, LRATD1, LRBA, LRCH3, LRCH4, LRFN1, LRFN4, LRG1, LRIF1,

LRIG1, LRIG2, LRIG3, LRMDA, LRMP, LRP1, LRP10, LRP11, LRP2BP, LRP3, LRP5L,

LRR1, LRRC1, LRRC14, LRRC18, LRRC20, LRRC23, LRRC25, LRRC3, LRRC34,

LRRC36, LRRC37A3, LRRC37B, LRRC41, LRRC42, LRRC45, LRRC46, LRRC47,

LRRC49, LRRC58, LRRC6, LRRC63, LRRC71, LRRC74A, LRRC8A, LRRCC1, LRRFIP1,

LRRIQ1, LRRK1, LRRK2, LRRN1, LRRN2, LRRN3, LRWD1, LSAMP, LSG1, LSM12,

LSM14B, LSM3, LSM7, LSP1, LSR, LSS, LTA, LTB, LTB4R, LTB4R2, LTBP1, LTBP3,

LTBP4, LTBR, LTK, LTO1, LUC7L, LUC7L2, LUC7L3, LURAP1L, LVRN, LXN, LY6D,

LY6E, LY6G5B, LY9, LYL1, LYPD2, LYPD5, LYPD6B, LYPLA2, LYRM2, LYRM4,

LYRM9, LYSMD1, LYSMD2, LYSMD3, LYSMD4, LYST, LYVE1, LZTFL1, LZTS2,

LZTS3, M1AP, M6PR, MAATS1, MAB21L4, MACC1, MACROH2A1, MACROH2A2,

MAD1L1, MAD2L1BP, MAD2L2, MADD, MAEA, MAF1, MAFF, MAFG, MAFK,

MAGEE1, MAGEH1, MAGI1, MAGI3, MAGOH, MAGOHB, MAIP1, MAK16, MAL2,

MALAT1, MALL, MALSU1, MALT1, MAMDC4, MAML2, MAMLD1, MAN1A1,

MAN1B1, MAN2A1, MAN2A2, MAN2B1, MAN2B2, MAN2C1, MANEA, MANEAL,

MANF, MANSC4, MAP11, MAP1A, MAP1B, MAP1LC3C, MAP1S, MAP2K2, MAP2K3,

MAP2K5, MAP2K6, MAP2K7, MAP3K10, MAP3K11, MAP3K12, MAP3K14, MAP3K19,

MAP3K3, MAP3K4, MAP3K6, MAP3K7, MAP4, MAP4K1, MAP4K2, MAP4K3,

MAP4K4, MAP4K5, MAP6, MAP7, MAP7D1, MAP9, MAPK10, MAPK11, MAPK14,

MAPK1IP1L, MAPK3, MAPK6, MAPK8IP3, MAPKAP1, MAPKAPK3, MAPKBP1,

MAPRE1, MARC1, MARCHF1, MARCHF2, MARCHF6, MARCHF8, MARCHF9,

MARCO, MARF1, MARK2, MARS1, MARS2, MARVELD1, MARVELD2, MARVELD3,

MASP2, MAST3, MASTL, MATK, MAU2, MAVS, MAZ, MB, MBD1, MBD3, MBD4,

MBD6, MBLAC1, MBNL1, MBNL2, MBOAT7, MBP, MBTD1, MBTPS1, MC1R, MCC,

MCCC1, MCF2, MCFD2, MCIDAS, MCL1, MCM2, MCM3AP, MCM3AP-AS1, MCM4,

MCM5, MCM7, MCMBP, MCOLN1, MCPH1, MCR1P1, MCR1P2, MCRS1, MCTP1,

MCTP2, MCTS1, MCU, MCUR1, MDGA1, MDH1, MDH1B, MDM2, MDM4, ME1, ME2,

ME3, MECOM, MECP2, MED10, MED11, MED12, MED13, MED13L, MED14, MED15,

MED16, MED18, MED19, MED21, MED22, MED24, MED25, MED26, MED28, MED30,

MED7, MED8, MEF2D, MEFV, MEGF11, MEGF6, MEGF8, MEGF9, MEIS2, MEIS3,

MEMO1, MEN1, MEP1A, MEPCE, MEST, MET, METAP1, METAP1D, METAP2,

METTL14, METTL17, METTL21A, METTL23, METTL25, METTL3, METTL4, METTL5,

METTL6, METTL7B, METTL8, METTL9, MEX3C, MFAP1, MFAP5, MFGE8, MFN2,

MFNG, MFSD10, MFSD11, MFSD12, MFSD13A, MFSD14A, MFSD14B, MFSD14C,

MFSD2A, MFSD2B, MFSD3, MFSD4A, MFSD4B, MFSD6, MFSD8, MGA, MGAM,

MGAT1, MGAT4A, MGAT4B, MGLL, MGRN1, MGST2, MGST3, MIB2, MICAL1,

MICAL2, MICAL3, MICALL1, MICALL2, MICOS13, MICU2, MID1, MID1IP1, MIDN,

MIEN1, MIER1, MIF4GD, MIGA2, MIIP, MINCR, MINDY2, MINK1, MIPOL1,

MIR155HG, MIR421, MIR4435-2HG, MIS12, MITF, MKKS, MKNK2, MKRN1, MLC1,

MLEC, MLF1, MLF2, MLH1, MLLT1, MLLT11, MLLT3, MLLT6, MLPH, MLST8, MLX,

MLXIP, MLYCD, MMAA, MMAB, MMADHC, MME, MMGT1, MMP1, MMP10,

MMP12, MMP17, MMP19, MMP23B, MMP24, MMP25, MMP7, MMP9, MMRN1,

MMS19, MMS22L, MMUT, MNAT1, MNS1, MNT, MOAP1, MOB1A, MOB2, MOB3A,

MOB3B, MOB3C, MOB4, MOCOS, MOCS2, MOCS3, MOGS, MOK, MORC4, MORN1,

MORN2, MORN3, MORN5, MOSPD1, MOSPD2, MOSPD3, MOV10, MPC1, MPC2,

MPDU1, MPDZ, MPEG1, MPG, MPHOSPH6, MPIG6B, MPO, MPP1, MPP5, MPPE1,

MPRIP, MPST, MPV17, MPV17L, MPV17L2, MPZL2, MR1, MRAP2, MRAS, MRC1,

MRFAP1, MRFAP1L1, MRI1, MRM2, MRNIP, MRO, MROH1, MRPL1, MRPL13,

MRPL17, MRPL18, MRPL19, MRPL2, MRPL20, MRPL21, MRPL23, MRPL27, MRPL28,

MRPL32, MRPL33, MRPL34, MRPL35, MRPL36, MRPL37, MRPL38, MRPL39, MRPL4,

MRPL40, MRPL42, MRPL44, MRPL45, MRPL46, MRPL48, MRPL50, MRPL51, MRPL54,

MRPL57, MRPL58, MRPS10, MRPS12, MRPS14, MRPS16, MRPS18B, MRPS18C,

MRPS2, MRPS23, MRPS25, MRPS26, MRPS30, MRPS31, MRPS33, MRPS34, MRPS35,

MRPS36, MRPS5, MRTFA, MRTFB, MS4A1, MS4A14, MS4A2, MS4A3, MS4A4A,

MS4A8, MSANTD3, MSANTD4, MSH3, MSH5, MSH6, MSI2, MSL1, MSL2, MSL3,

MSLN, MSMB, MSN, MSR1, MSRB1, MSRB3, MSS51, MSTO1, MT1E, MT1F, MT1G,

MT1H, MT1X, MT2A, MT3, MTA1, MTA2, MTAP, MT-ATP6, MT-ATP8, MTBP,

MTCH1, MTCH2, MT-CO1, MT-CO2, MT-CO3, MT-CYB, MTDH, MTERF1, MTF2,

MTFR1L, MTG1, MTHFD1L, MTHFD2, MTHFD2L, MTHFR, MTHFSD, MTIF2, MTIF3,

MTLN, MTMR11, MTMR14, MTMR2, MTMR3, MTMR9, MT-ND1, MT-ND2, MT-ND3,

MT-ND4, MT-ND4L, MT-ND5, MT-ND6, MTPN, MTR, MTREX, MTRF1, MTRNR2L1,

MTRNR2L10, MTRNR2L12, MTRNR2L3, MTRNR2L5, MTRNR2L6, MTRNR2L7,

MTRNR2L8, MTRR, MTUS1, MTX1, MTX2, MTX3, MUC1, MUC13, MUC15, MUC16,

MUC2, MUC20, MUC21, MUC22, MUC4, MUC5AC, MUC5B, MUC7, MUL1, MUS81,

MUTYH, MVB12A, MVD, MVK, MVP, MX1, MXD3, MXD4, MXI1, MXRA7, MXRA8,

MYADM, MYB, MYBBP1A, MYBL1, MYBL2, MYCBP2, MYCBPAP, MYCL, MYDGF,

MYEF2, MYH14, MYH9, MYL12A, MYL12B, MYL4, MYL5, MYL6, MYL6B, MYL9,

MYLIP, MYLK, MYLK4, MYNN, MYO10, MYO15A, MYO15B, MYO18A, MYO19,

MYO1B, MYO1C, MYO1D, MYO1E, MYO1F, MYO1G, MYO5A, MYO5B, MYO5C,

MYO6, MYO9A, MYO9B, MYOF, MYOM1, MYOM2, MYPOP, MYRF, MYRIP,

MYZAP, MZF1, MZT2B, N4BP1, N4BP2L2, N4BP3, N6AMT1, NAA15, NAA16, NAA25,

NAA40, NAA50, NAA80, NAAA, NAALADL2, NAB1, NABP1, NACA, NACA2, NACC1,

NACC2, NADSYN1, NAGA, NAGK, NAGPA, NAIF1, NAIP, NANP, NAP1L4, NAPA,

NAPB, NAPEPLD, NAPRT, NARF, NARS1, NARS2, NAT14, NAT8B, NAT9, NATD1,

NAV2, NAXD, NBAS, NBDY, NBEA, NBEAL1, NBEAL2, NBN, NBPF10, NBPF11,

NBPF12, NBPF14, NBPF15, NBPF19, NBPF20, NBPF26, NBPF3, NBPF8, NBPF9, NBR1,

NCALD, NCAM1, NCAPD2, NCAPD3, NCAPG2, NCAPH2, NCBP2, NCBP3, NCCRP1,

NCEH1, NCF1, NCF2, NCK1, NCK2, NCKAP1, NCKAP5, NCKAP5L, NCL, NCLN,

NCMAP, NCOA2, NCOA5, NCOA7, NCOR1, NCOR2, NCR1, NCR3, NCS1, NCSTN,

NDE1, NDEL1, NDFIP1, NDFIP2, NDN, NDNF, NDOR1, NDRG1, NDRG2, NDST1,

NDST2, NDUFA1, NDUFA10, NDUFA12, NDUFA13, NDUFA2, NDUFA3, NDUFA4,

NDUFA5, NDUFA6, NDUFA8, NDUFAB1, NDUFAF2, NDUFAF3, NDUFB1, NDUFB2,

NDUFB3, NDUFB4, NDUFB6, NDUFB7, NDUFB8, NDUFB9, NDUFC1, NDUFS3,

NDUFS4, NDUFS5, NDUFS6, NDUFS7, NDUFV1, NDUFV2, NDUFV3, NEBL, NECAB3,

NECAP1, NECTIN4, NEDD9, NEIL1, NEIL3, NEK1, NEK10, NEK11, NEK2, NEK4,

NEK5, NEK6, NEK7, NEK8, NEK9, NELFB, NELFCD, NELFE, NEMF, NEMP1, NEMP2,

NENF, NEO1, NET1, NETO1, NEU4, NEURL1, NEURL1B, NEURL2, NEURL3,

NEURL4, NEXMIF, NF1, NFAM1, NFAT5, NFATC1, NFATC2, NFATC2IP, NFE2,

NFE2L1, NFE2L2, NFIA, NFIB, NFIC, NFIL3, NFKB2, NFKBIA, NFKBIB, NFKBID,

NFKBIE, NFKBIL1, NFKBIZ, NFS1, NFX1, NFXL1, NFYC, NGEF, NGRN, NHLRC2,

NHP2, NHS, NHSL1, NHSL2, NIBAN2, NIBAN3, NIDI, NIF3L1, NIFK, NIN, NINJ2,

NINL, NIP7, NIPBL, NISCH, NIT1, NKAP, NKAPD1, NKG7, NKIRAS1, NKIRAS2,

NKTR, NKX2-1, NKX3-1, NLGN2, NLGN3, NLK, NLRC3, NLRC4, NLRC5, NLRP1,

NLRP12, NLRP3, NLRP6, NLRX1, NMB, NMD3, NME1, NME2, NME3, NME4, NME5,

NME7, NME9, NMI, NMNAT2, NMRAL1, NMT1, NMT2, NMUR1, NNAT, NNT,

NOC2L, NOC4L, NOCT, NOD2, NOL4L, NOL6, NOL7, NOL9, NOM1, NOMO1, NOMO2,

NOMO3, NONO, NOP10, NOP53, NOP56, NOP9, NOS2, NOSIP, NOTCH1, NOTCH2,

NOTCH2NLA, NOTCH4, NOX4, NOXA1, NPAS2, NPAS3, NPAT, NPEPL1, NPIPA1,

NPIPA2, NPIPA3, NPIPA5, NPIPA7, NPIPA8, NPIPB12, NPIPB13, NPIPB15, NPIPB2,

NPIPB3, NPIPB4, NPIPB5, NPIPB6, NPIPB9, NPL, NPLOC4, NPM3, NPNT, NPRL3,

NPTN, NPTXR, NPW, NQO1, NR1H2, NR1H3, NR2F2, NR2F6, NR3C1, NR4A1, NR4A2,

NRAS, NRBF2, NRBP2, NRCAM, NRDC, NRG1, NRG4, NRGN, NRIP1, NRIP2, NRM,

NRP1, NRP2, NRROS, NRXN1, NRXN3, NSA2, NSD1, NSF, NSFL1C, NSG1, NSL1,

NSMAF, NSMCE1, NSMCE3, NSMF, NSRP1, NSUN2, NSUN5, NSUN6, NSUN7, NT5C2,

NT5DC2, NT5DC3, NT5M, NTAN1, NTF4, NTMT1, NTN4, NTNG2, NTRK3, NTSR1,

NUAK1, NUAK2, NUBP1, NUBP2, NUBPL, NUCB1, NUCKS1, NUDCD1, NUDCD2,

NUDCD3, NUDT12, NUDT14, NUDT15, NUDT16L1, NUDT17, NUDT19, NUDT2,

NUDT21, NUDT22, NUDT3, NUDT5, NUDT8, NUFIP1, NUFIP2, NUGGC, NUMA1,

NUP188, NUP205, NUP210, NUP42, NUP50, NUP54, NUP58, NUP62, NUP85, NUP88,

NUP93, NUPR1, NUS1, NUTM2A, NUTM2D, NUTM2G, NWD1, NXF1, NXF3, NXN,

NXPE3, OAF, OAS1, OAS2, OASL, OAT, OAZ1, OAZ2, OBI1, OBSCN, OCIAD1, OCLN,

OCRL, ODF2, ODF2L, ODF3B, OFD1, OGA, OGDH, OGFOD1, OGFOD3, OGFR, OGG1,

OGT, OLA1, OLAH, OLFML2A, OLFML2B, OLFML3, OLIG1, OLR1, OMA1, OMD,

OMG, OPA3, OPHN1, OPLAH, OPRL1, OR2A4, OR2A42, OR2A7, OR2B6, OR2W3,

OR5AU1, ORAI1, ORAI2, ORAI3, ORC1, ORC2, ORC3, ORM2, ORMDL1, ORMDL2,

ORMDL3, OS9, OSBP2, OSBPL11, OSBPL1A, OSBPL2, OSBPL5, OSBPL6, OSBPL7,

OSBPL8, OSBPL9, OSCP1, OSER1, OSGEP, OSGIN2, OSMR, OSR2, OTOA, OTUB1,

OTUB2, OTUD1, OTUD3, OTUD6B, OTUD7B, OTULIN, OTX1, OVCH1, OVGP1,

OXA1L, OXER1, OXLD1, OXNAD1, OXSR1, P2RX1, P2RX4, P2RX5, P2RY10, P2RY13,

P2RY8, P3H1, P4HA1, P4HA2, P4HB, P4HTM, PABPC1L, PABPC3, PABPN1, PACRG,

PACS1, PACS2, PACSIN1, PACSIN2, PADI1, PADI4, PAFAH1B1, PAFAH1B2, PAG1,

PAGE2B, PAIP2, PAK1, PAKHP1, PAK4, PALB2, PALLD, PALMD, PAM16, PAN2,

PAN3, PANK1, PANK2, PANK4, PANX2, PAPLN, PAPSS1, PAPSS2, PAQR4, PAQR5,

PAQR6, PAQR7, PAQR8, PARD3, PARD3B, PARD6A, PARD6B, PARG, PARK7, PARE,

PARP1, PARP10, PARP11, PARP14, PARP15, PARP2, PARP4, PARP8, PARVA, PARVB,

PARVG, PASK, PATL2, PATZ1, PAX5, PAX9, PAXBP1, PBDC1, PBLD, PBRM1, PBX2,

PBX3, PBX4, PBXIP1, PCBD1, PCBP1, PCBP2, PCBP4, PCCA, PCDH12, PCDH9,

PCDHGB7, PCED1A, PCED1B, PCGF3, PCGF6, PCIF1, PCLO, PCM1, PCMT1, PCMTD2,

PCNA, PCNP, PCNT, PCNX1, PCNX3, PCOLCE2, PCP4L1, PCSK1N, PCSK5, PCSK6,

PCSK7, PCYOX1, PCYOX1L, PDAP1, PDC, PDCD1, PDCD10, PDCD11, PDCD1LG2,

PDCD2L, PDCD6, PDCL3, PDE2A, PDE3A, PDE4D, PDE4DIP, PDE5A, PDE6B, PDE6D,

PDE7A, PDE8A, PDE8B, PDE9A, PDGFA, PDGFC, PDGFRB, PDHA1, PDHX, PDIA3,

PDIA4, PDIA5, PDIA6, PDK1, PDK3, PDK4, PDLIM1, PDLIM2, PDLIM3, PDLIM5,

PDLIM7, PDP1, PDPR, PDRG1, PDS5B, PDSS1, PDXDC1, PDZD11, PDZD2, PDZD4,

PDZD8, PDZK1, PDZK1IP1, PEAK1, PEAK3, PEAR1, PEBP1, PEBP4, PEG10, PEG3,

PELI1, PELI2, PELP1, PEMT, PER1, PER2, PER3, PERP, PES1, PET100, PEX1, PEX10,

PEX11B, PEX13, PEX16, PEX26, PF4, PF4V1, PFDN1, PFDN2, PFDN5, PFDN6, PFKFB3,

PFKFB4, PFKL, PFKM, PFKP, PFN1, PFN2, PFN4, PGA3, PGA4, PGA5, PGAM1,

PGAM4, PGAM5, PGAP2, PGAP3, PGAP4, PGAP6, PGBD2, PGBD4, PGD, PGGHG,

PGGT1B, PGK1, PGM2, PGM2L1, PGM3, PGM5, PGPEP1, PGRMC1, PGS1, PHACTR1,

PHACTR2, PHACTR4, PHAX, PHB2, PHC2, PHC3, PHETA1, PHEX, PHF1, PHF10,

PHF12, PHF13, PHF14, PHF19, PHF2, PHF21A, PHF3, PHF5A, PHF6, PHF8, PHKG2,

PHLDA1, PHLDA3, PHLDB3, PHLPP1, PHOSPHO1, PHRF1, PHTF2, PHYH, PHYHD1,

PHYKPL, PI3, PI4K2A, PI4K2B, PI4KA, PI4KB, PIAS1, PIAS2, PIAS3, PIAS4, PIBF1,

PICALM, PICK1, PID1, PIDD1, PIEZO1, PIF1, PIFO, PIGA, PIGF, PIGG, PIGK, PIGL,

PIGM, PIGO, PIGP, PIGQ, PIGR, PIGS, PIGT, PIGU, PIGX, PIGZ, PIH1D1, PIH1D2,

PIK3C2A, PIK3C2B, PIK3CD, PIK3IP1, PIK3R3, PIK3R5, PIK3R6, PILRB, PIM1, PIM2,

PIM3, PIN1, PIN4, PINK1, PIP, PIP4K2A, PIP4K2B, PIP4K2C, PIP4P1, PIP4P2, PIP5K1A,

PIP5K1C, PIP5KL1, PIR, PITPNA, PITPNB, PITPNC1, PITPNM1, PITPNM2, PITX1,

PIWIL4, PJA2, PKD1, PKD1L3, PKD2, PKD2L1, PKDCC, PKHD1L1, PKIB, PKM,

PKMYT1, PKN1, PKNOX1, PKP1, PKP2, PKP3, PKP4, PLA1A, PLA2G10, PLA2G4C,

PLA2G6, PLA2G7, PLA2R1, PLAAT2, PLAGL2, PLAT, PLAU, PLAUR, PLBD1, PLCB1,

PLCB2, PLCB4, PLCD1, PLCD3, PLCE1, PLCG1, PLCG2, PLCH1, PLCH2, PLCL2,

PLCXD1, PLD1, PLD2, PLD3, PLD4, PLD6, PLEC, PLEK, PLEK2, PLEKHA3, PLEKHA5,

PLEKHA7, PLEKHF1, PLEKHF2, PLEKHG2, PLEKHG3, PLEKHJ1, PLEKHM1,

PLEKHM2, PLEKHM3, PLEKHO2, PLEKHS1, PLGLB1, PLGLB2, PLGRKT, PLIN2,

PLIN3, PLIN4, PLK1, PLK2, PLK3, PLOD1, PLOD3, PLP2, PLPP2, PLPP3, PLPP6,

PLPPR2, PLS1, PLS3, PLSCR4, PLVAP, PLXDC1, PLXDC2, PLXNA1, PLXNA3,

PLXNA4, PLXNB2, PLXNB3, PLXNC1, PLXND1, PMEPA1, PMF1, PMFBP1, PMM1,

PMM2, PMP22, PMPCA, PMPCB, PMS1, PMVK, PNISR, PNKD, PNKP, PNMA3,

PNMA8A, PNN, PNP, PNPLA1, PNPLA2, PNPLA3, PNPLA4, PNPLA6, PNPLA8, PNPO,

POC1B, PODXL, POF1B, POFUT1, POFUT2, POGLUT1, POGLUT3, POLA1, POLA2,

POLB, POLDI, POLD3, POLD4, POLDIP2, POLDIP3, POLE, POLE3, POLG, POLG2,

POLK, POLL, POLM, POLR1A, POLR1B, POLR2A, POLR2B, POLR2C, POLR2E,

POLR2F, POLR2G, POLR2H, POLR2I, POLR2J2, POLR2J3, POLR2K, POLR2L,

POLR2M, POLR3B, POLR3C, POLR3E, POLR3F, POLR3H, POLR3K, POLRMT,

POM121, POM121C, POMGNT1, POMGNT2, POMK, POMP, POMT1, POMT2, POMZP3,

POP4, POPDC2, POR, POSTN, POT1, POTEE, POTEF, POTEI, POTEJ, POU2F1, POU2F2,

POU5F2, POU6F1, PP2D1, PPA1, PPA2, PPAN, PPARD, PPARG, PPARGC1A,

PPARGC1B, PPBP, PPCDC, PPCS, PPDPF, PPFIA1, PPFIBP1, PPHLN1, PPIB, PPIC,

PPID, PPIE, PPIF, PPIG, PPIL1, PPIL2, PPIL4, PPIL6, PPIP5K1, PPL, PPM1A, PPM1B,

PPM1D, PPM1F, PPM1G, PPM1H, PPM1K, PPM1L, PPM1M, PPOX, PPP1CA, PPP1CC,

PPP1R10, PPP1R12C, PPP1R13L, PPP1R14C, PPP1R15A, PPP1R15B, PPP1R16B,

PPP1R18, PPP1R1A, PPP1R1B, PPP1R32, PPP1R36, PPP1R3C, PPP1R3E, PPP1R3F,

PPP1R8, PPP1R9A, PPP1R9B, PPP2CA, PPP2CB, PPP2R1A, PPP2R1B, PPP2R2A,

PPP2R2B, PPP2R2D, PPP2R3A, PPP2R5A, PPP2R5B, PPP2R5D, PPP3CA, PPP3CC,

PPP3R1, PPP4C, PPP5C, PPP5D1, PPP6C, PPP6R1, PPP6R2, PPP6R3, PPRC1, PPT1,

PPT2, PPTC7, PPWD1, PQBP1, PRADC1, PRAF2, PRAG1, PRAM1, PRB1, PRB3, PRB4,

PRCC, PRDM1, PRDM10, PRDM15, PRDM2, PRDX1, PRDX2, PRDX3, PREB, PRELID1,

PRELID3A, PRELID3B, PREP, PREPL, PREX1, PRF1, PRH2, PRICKLE2, PRICKLE3,

PRIMPOL, PRKAAI, PRKAA2, PRKAB1, PRKAB2, PRKACA, PRKACB, PRKAG1,

PRKAG2, PRKAG3, PRKAR2A, PRKCA, PRKCB, PRKCD, PRKCH, PRKCI, PRKCQ,

PRKCSH, PRKD2, PRKD3, PRKN, PRKRA, PRKRIP1, PRMT1, PRMT2, PRMT6,

PRMT7, PRNP, PROCA1, PROCR, PROM1, PROM2, PRORP, PROS1, PROSER3,

PROX1, PRPF19, PRPF38B, PRPF39, PRPF40A, PRPF4B, PRPF6, PRPF8, PRPS1,

PRPSAP1, PRPSAP2, PRR11, PRR12, PRR13, PRR14, PRR15, PRR15L, PRR18, PRR29,

PRR5, PRR7, PRRC1, PRRC2A, PRRC2B, PRRC2C, PRRG3, PRRT4, PRRX1, PRRX2,

PRSS12, PRSS16, PRSS21, PRSS23, PRSS3, PRSS36, PRSS53, PRUNE1, PRUNE2, PRX,

PRXL2A, PRXL2B, PRXL2C, PSAP, PSCA, PSD, PSD3, PSD4, PSEN2, PSENEN, PSKH1,

PSMA2, PSMA3, PSMA4, PSMA6, PSMA7, PSMB1, PSMB10, PSMB2, PSMB5, PSMB7,

PSMB8, PSMC2, PSMC3IP, PSMC4, PSMC6, PSMD1, PSMD10, PSMD12, PSMD13,

PSMD14, PSMD2, PSMD3, PSMD5, PSMD8, PSME3, PSME4, PSMF1, PSMG1, PSMG2,

PSPC1, PSPH, PSRC1, PSTPIP1, PSTPIP2, PTAFR, PTAR1, PTBP1, PTBP2, PTBP3,

PTCD1, PTCRA, PTDSS1, PTDSS2, PTER, PTGDR, PTGDS, PTGER2, PTGER3,

PTGER4, PTGES, PTGES2, PTGES3L, PTGFR, PTGIR, PTGR1, PTGS1, PTK2, PTK2B,

PTMA, PTN, PTOV1, PTP4A1, PTP4A3, PTPA, PTPN12, PTPN13, PTPN14, PTPN18,

PTPN23, PTPN3, PTPN4, PTPN6, PTPN7, PTPRC, PTPRE, PTPRF, PTPRJ, PTPRK,

PTPRM, PTPRO, PTPRS, PTPRT, PTPRU, PTPRZ1, PTRH2, PTRHD1, PTX3, PUDP,

PUF60, PUM2, PUM3, PURA, PURB, PUS1, PUS10, PUS3, PWP1, PWP2, PWWP2B,

PWWP3A, PXDC1, PXDN, PXK, PXMP4, PXN, PXYLP1, PYCARD, PYCR2, PYGB,

PYGM, PYGO2, PYHIN1, PYM1, PYROXD2, PYURF, QARS1, QPCT, QPCTL, QRICH1,

QSER1, QSOX1, QSOX2, QTRT1, R3HDM4, RAB10, RAB11B, RAB11FIP1, RAB11FIP3,

RAB11FIP4, RAB12, RAB13, RAB1A, RAB1B, RAB20, RAB21, RAB22A, RAB23,

RAB24, RAB25, RAB27A, RAB30, RAB32, RAB35, RAB36, RAB37, RAB38, RAB39A,

RAB39B, RAB3C, RAB3D, RAB40B, RAB40C, RAB42, RAB43, RAB44, RAB5IF,

RAB6B, RAB7A, RAB7B, RAB8B, RAB9A, RABAC1, RABEP1, RABEP2, RABEPK,

RABGAP1, RABGAP1L, RABGEF1, RABGGTA, RABGGTB, RABIF, RABL2A,

RABL2B, RABL6, RAC1, RAC2, RAD17, RAD18, RAD23A, RAD51AP1, RAD51D,

RAD54L2, RAD9A, RADX, RAE1, RAF1, RAI1, RAI14, RAI2, RALBP1, RALGAPA2,

RALGAPB, RALGPS2, RALY, RAMAC, RAN, RANBP10, RANBP17, RANBP2,

RANBP6, RANBP9, RANGAP1, RAP1A, RAP1GAP, RAP2A, RAP2B, RAPGEF1,

RAPGEF4, RAPH1, RARA, RARB, RARG, RARRES1, RARS1, RARS2, RASA2, RASA3,

RASAL2, RASAL3, RASEF, RASGEF1A, RASGEF1B, RASGRP1, RASGRP2, RASGRP3,

RASGRP4, RASSF1, RASSF2, RASSF3, RASSF5, RASSF6, RASSF8, RASSF9, RAVER1,

RAVER2, RB1, RBBP4, RBBP6, RBBP8, RBBP9, RBCK1, RBFA, RBFOX2, RBL1, RBL2,

RBM10, RBM11, RBM12, RBM12B, RBM14, RBM14-RBM4, RBM15, RBM17, RBM18,

RBM19, RBM22, RBM23, RBM24, RBM27, RBM3, RBM33, RBM34, RBM38, RBM39,

RBM4, RBM41, RBM43, RBM44, RBM47, RBM5, RBM6, RBMS2, RBMS3, RBMX,

RBMXL1, RBP1, RBP4, RBP5, RBPJ, RBPMS, RBSN, RBX1, RCBTB2, RCC1, RCC1L,

RCE1, RCHY1, RCL1, RCN2, RCN3, RCSD1, RDH10, RDH11, RDH12, RDH13, RDH5,

RDX, REC8, REEP3, RELA, RELB, RELCH, RELL2, RELT, REM2, RENBP, REPIN1,

REPS1, RER1, RERE, RERG, RESF1, REST, RETREG1, RETREG2, RETREG3, RETSAT,

REV3L, REX1BD, REXO1, REXO4, REXO5, RFC1, RFFL, RFK, RFLNB, RFNG, RFTN1,

RFWD3, RFX1, RFX2, RFX5, RFX7, RFXANK, RFXAP, RGCC, RGL1, RGL2, RGL3,

RGL4, RGN, RGP1, RGPD1, RGPD2, RGPD4, RGPD5, RGPD6, RGPD8, RGS1, RGS12,

RGS14, RGS16, RGS17, RGS18, RGS22, RGS3, RGS6, RGS7BP, RGS9, RHAG, RHBDD1,

RHBDF2, RHCE, RHCG, RHD, RHEB, RHNO1, RHO, RHOBTB2, RHOBTB3, RHOF,

RHOG, RHOQ, RHOT2, RHOU, RHOV, RHOXF2, RHOXF2B, RHPN1, RHPN2, RIBC1,

RIBC2, RIC1, RIC8A, RIDA, RIF1, RILP, RILPL2, RIMBP3, RIMBP3B, RIMKLB, RIMS1,

RIMS3, RIN1, RIN2, RINL, RIOK1, RIOK2, RIOK3, RIOX1, RIPK1, RIPOR1, RIPOR2,

RIPOR3, RMC1, RMDN3, RMND1, RMND5A, RMND5B, RNASE10, RNASE6, RNASE7,

RNASEH2C, RNASEK, RNASEL, RNASET2, RND3, RNF10, RNF11, RNF111, RNF121,

RNF122, RNF123, RNF125, RNF126, RNF13, RNF139, RNF144A, RNF145, RNF149,

RNF150, RNF152, RNF157, RNF165, RNF166, RNF167, RNF169, RNF180, RNF181,

RNF182, RNF187, RNF2, RNF20, RNF212, RNF215, RNF217, RNF220, RNF24, RNF25,

RNF26, RNF31, RNF38, RNF39, RNF40, RNF41, RNF44, RNF5, RNF6, RNF7, RNF8,

RNFT1, RNGTT, RNH1, RNLS, RNPC3, RNPEPL1, RNPS1, RO60, ROBO1, ROBO3,

ROCK2, ROGDI, ROMO1, ROPN1B, ROPN1L, RORB, ROS1, RP1, RPA1, RPA3, RPE,

RPF1, RPF2, RPGRIP1L, RPL11, RPL12, RPL13A, RPL14, RPL15, RPL17, RPL18A,

RPL19, RPL21, RPL22, RPL22L1, RPL23, RPL24, RPL26, RPL26L1, RPL27, RPL27A,

RPL28, RPL29, RPL30, RPL31, RPL35, RPL35A, RPL36, RPL36AL, RPL37, RPL37A,

RPL38, RPL41, RPL5, RPL6, RPL7, RPL7A, RPL7L1, RPL9, RPLP0, RPLP1, RPLP2,

RPN1, RPN2, RPP21, RPP25, RPP25L, RPP30, RPRD1A, RPRD2, RPS11, RPS12, RPS13,

RPS14, RPS15, RPS15A, RPS16, RPS17, RPS18, RPS19, RPS20, RPS24, RPS25, RPS27,

RPS27A, RPS27L, RPS29, RPS3A, RPS4X, RPS4Y1, RPS5, RPS6, RPS6KA1, RPS6KA2,

RPS6KA3, RPS6KA4, RPS6KB2, RPS7, RPS8, RPS9, RPSA, RPTN, RPUSD1, RPUSD4,

RRAGA, RRAGB, RRAGC, RRAGD, RRAS, RRBP1, RRM1, RRM2B, RRN3, RRP12,

RRP8, RRP9, RSAD2, RSBN1, RSF1, RSKR, RSL1D1, RSL24D1, RSPH1, RSPH10B,

RSPH10B2, RSPH3, RSPH4A, RSPH9, RSPO3, RSRC1, RSRC2, RSRP1, RTCA, RTEL1,

RTF2, RTL5, RTL6, RTL8A, RTL8B, RTL8C, RTN1, RTN3, RTP4, RTTN, RUBCN,

RUFY2, RUFY3, RUNDC1, RUNDC3A, RUNX3, RUSC2, RUVBL1, RWDD1, RWDD2B,

RWDD4, RXRA, RXRB, RXYLT1, RYK, RYR3, S100A10, S100A11, S100A12, S100A13,

S100A14, S100A16, S100A2, S100A3, S100A4, S100A6, S100A7, S100A9, S100B, S100P,

S100PBP, SIPR1, S1PR3, S1PR4, S1PR5, SAA1, SAE1, SAFB, SAFB2, SALL4, SAMD1,

SAMD10, SAMD12, SAMD14, SAMD15, SAMD3, SAMD4A, SAMD4B, SAMD8,

SAMD9, SAMD9L, SAMHD1, SAMM50, SAMSN1, SAP130, SAP18, SAP30, SAP30BP,

SAP30-DT, SAPCD2, SAR1B, SARAF, SARS1, SART1, SASH1, SASH3, SAV1, SAXO2,

SAYSD1, SBDS, SBF1, SBF2, SBF2-AS1, SBNO1, SBNO2, SCAF1, SCAF11, SCAF4,

SCAI, SCAMP2, SCAMP3, SCAMP4, SCAMP5, SCAND1, SCAP, SCARA3, SCARB2,

SCARF1, SCCPDH, SCD, SCD5, SCEL, SCFD2, SCGB1A1, SCGB3A1, SCGB3A2, SCIN,

SCLY, SCMH1, SCML4, SCN1B, SCN3A, SCNN1A, SCNN1D, SCNN1G, SCO1, SCOC,

SCP2, SCPEP1, SCRIB, SCRN2, SCRN3, SCUBE3, SCYL1, SDAD1, SDC2, SDC3,

SDCBP, SDCBP2, SDCCAG8, SDE2, SDF4, SDHAF2, SDHB, SDHC, SDHD, SDK1,

SDK2, SDR16C5, SDR39U1, SDS, SDSL, SEC11A, SEC14L1, SEC14L2, SEC14L5,

SEC14L6, SEC16A, SEC22A, SEC24A, SEC24B, SEC24C, SEC31A, SEC31B, SEC61A1,

SEC61A2, SEC61B, SEC61G, SECISBP2, SECISBP2L, SECTM1, SEH1L, SEL1L,

SELENBP1, SELENOI, SELENOK, SELENON, SELENOO, SELENOW, SELL, SELP,

SELPLG, SEM1, SEMA3A, SEMA3C, SEMA3F, SEMA4A, SEMA4B, SEMA4C,

SEMA4D, SEMA4F, SEMA6A, SEMA6B, SEMA6C, SEMA7A, SENP1, SENP3, SENP5,

SENP7, SENP8, SEPHS1, SEPHS2, SEPTIN1, SEPTIN10, SEPTIN11, SEPTIN3, SEPTIN4,

SEPTIN6, SEPTIN7, SEPTIN9, SERAC1, SERBP1, SERF1B, SERF2, SERGEF, SERHL2,

SERINC1, SERINC3, SERINC5, SERPINB1, SERPINB10, SERPINB11, SERPINB12,

SERPINB13, SERPINB2, SERPINB3, SERPINB4, SERPINB5, SERPINB9, SERPINE1,

SERPINE2, SERPINF1, SERPINF2, SERPING1, SERTAD2, SERTAD3, SERTAD4,

SESN2, SESN3, SETD1A, SETD1B, SETD2, SETD4, SETD6, SETD7, SETDB1, SETDB2,

SETMAR, SETX, SF1, SF3A1, SF3A2, SF3A3, SF3B1, SF3B2, SF3B3, SF3B4, SF3B6,

SFI1, SFMBT2, SFPQ, SFR1, SFRP5, SFSWAP, SFT2D2, SFTPA1, SFTPA2, SFTPB,

SFTPC, SFTPD, SFXN1, SFXN5, SGCE, SGK1, SGO2, SGPL1, SGPP2, SGSH, SGSM2,

SGSM3, SGTA, SH2B1, SH2B2, SH2B3, SH2D1A, SH2D1B, SH2D2A, SH2D3A,

SH2D3C, SH3BGRL, SH3BGRL3, SH3BP1, SH3BP2, SH3BP4, SH3BP5L, SH3D19,

SH3GL1, SH3GLB2, SH3KBP1, SH3PXD2A, SH3TC1, SH3TC2, SHARPIN, SHC1, SHC3,

SHC4, SHCBP1, SHFL, SHISA2, SHISA5, SHISA6, SHISA7, SHISAL2A, SHKBP1,

SHLD3, SHMT1, SHMT2, SHOC1, SHOC2, SHQ1, SHROOM2, SHROOM3, SHTN1,

SIAE, SIAH1, SIAH2, SIAH3, SIDT1, SIGIRR, SIGLEC11, SIGLEC12, SIGLEC16,

SIGLEC9, SIGMAR1, SIK1, SIK1B, SIK2, SIK3, SIN3B, SIPA1, SIPA1L1, SIPA1L2,

SIPA1L3, SIRPA, SIRPB2, SIRPD, SIRT2, SIRT3, SIRT5, SIRT7, SITI, SIVA1, SIX1,

SIX2, SIX4, SKA2, SKA3, SKAP1, SKI, SKIL, SKIV2L, SKP1, SLA, SLA2, SLAIN1,

SLAIN2, SLAMF8, SLAMF9, SLBP, SLC10A3, SLC10A5, SLC11A1, SLC11A2,

SLC12A1, SLC12A4, SLC12A6, SLC12A7, SLC12A9, SLC14A1, SLC15A2, SLC15A3,

SLC15A4, SLC16A10, SLC16A13, SLC16A3, SLC16A5, SLC16A6, SLC16A7, SLC16A8,

SLC16A9, SLC17A9, SLC18B1, SLC19A1, SLC19A2, SLC19A3, SLC1A1, SLC1A3,

SLC1A5, SLC20A1, SLC22A13, SLC22A15, SLC22A17, SLC22A18, SLC22A3, SLC23A1,

SLC23A2, SLC24A3, SLC24A4, SLC25A1, SLC25A11, SLC25A14, SLC25A15,

SLC25A17, SLC25A20, SLC25A22, SLC25A23, SLC25A24, SLC25A28, SLC25A29,

SLC25A3, SLC25A30, SLC25A35, SLC25A36, SLC25A37, SLC25A38, SLC25A39,

SLC25A4, SLC25A42, SLC25A43, SLC25A45, SLC25A6, SLC26A1, SLC26A6, SLC26A8,

SLC27A1, SLC27A2, SLC27A3, SLC29A1, SLC29A2, SLC29A3, SLC2A1, SLC2A10,

SLC2A11, SLC2A12, SLC2A14, SLC2A3, SLC2A4RG, SLC2A6, SLC2A9, SLC30A6,

SLC30A7, SLC30A9, SLC31A1, SLC31A2, SLC33A1, SLC34A2, SLC35A2, SLC35A3,

SLC35A4, SLC35B2, SLC35B4, SLC35C1, SLC35C2, SLC35D1, SLC35E2A, SLC35E2B,

SLC35E4, SLC35F2, SLC35F3, SLC35F6, SLC37A1, SLC37A2, SLC37A3, SLC37A4,

SLC38A1, SLC38A10, SLC38A2, SLC38A5, SLC38A6, SLC38A7, SLC38A9, SLC39A1,

SLC39A13, SLC39A14, SLC39A3, SLC39A7, SLC3A2, SLC41A2, SLC43A1, SLC43A2,

SLC44A1, SLC44A2, SLC44A3, SLC44A4, SLC46A2, SLC47A1, SLC49A3, SLC49A4,

SLC4A1, SLC4A11, SLC4A1AP, SLC4A2, SLC4A4, SLC4A7, SLC51A, SLC52A2,

SLC52A3, SLC5A4, SLC5A6, SLC5A9, SLC66A1, SLC66A2, SLC66A3, SLC6A12,

SLC6A14, SLC6A16, SLC6A20, SLC6A6, SLC6A8, SLC6A9, SLC7A1, SLC7A11,

SLC7A2, SLC7A5, SLC7A6, SLC7A7, SLC7A8, SLC8A1, SLC8A3, SLC8B1, SLC9A3R2,

SLC9A6, SLC9A7, SLC9A8, SLC9B2, SLC9C2, SLCO2A1, SLCO2B1, SLCO3A1,

SLCO4C1, SLF2, SLFN13, SLFN14, SLITRK4, SLITRK6, SLK, SLMAP, SLPI, SLX1A,

SLX1B, SLX4, SLX4IP, SMAD3, SMAD5, SMAD9, SMAP2, SMARCA1, SMARCA2,

SMARCA4, SMARCA5, SMARCAD1, SMARCB1, SMARCC1, SMARCD1, SMARCD2,

SMARCD3, SMC1A, SMC2, SMC6, SMCHD1, SMCR8, SMG1, SMG1P7, SMG5, SMG9,

SMIM11A, SMIM11B, SMIM12, SMIM14, SMIM15, SMIM19, SMIM20, SMIM22,

SMIM24, SMIM25, SMIM26, SMIM29, SMIM3, SMIM30, SMIM31, SMIM4, SMIM5,

SMIM6, SMIM7, SMIM8, SMKR1, SMNDC1, SMOC2, SMOX, SMPD1, SMPD2, SMPD3,

SMPD4, SMPDL3A, SMR3B, SMS, SMTN, SMTNL1, SMYD2, SMYD4, SMYD5, SNAI1,

SNAI2, SNAP23, SNAP47, SNAPC3, SNAPC4, SNAPC5, SNAPIN, SNCA, SNCAIP,

SND1, SNHG1, SNHG16, SNHG3, SNIP1, SNN, SNPH, SNRK, SNRNP200, SNRNP25,

SNRNP27, SNRNP35, SNRNP70, SNRPA, SNRPA1, SNRPB, SNRPB2, SNRPD1, SNRPG,

SNTB1, SNTN, SNU13, SNUPN, SNW1, SNX1, SNX10, SNX11, SNX13, SNX17, SNX18,

SNX19, SNX2, SNX20, SNX22, SNX24, SNX27, SNX30, SNX33, SNX5, SNX6, SNX7,

SNX9, SOAT1, SOBP, SOCS3, SOCS5, SOCS6, SOCS7, SOD1, SON, SORBS2, SORBS3,

SORCS2, SORD, SORL1, SOS1, SOSTDC1, SOWAHC, SOX12, SOX2, SOX21, SOX5,

SOX6, SOX9, SP110, SP2, SPA17, SPACA9, SPAG1, SPAG16, SPAG17, SPAG6, SPAG7,

SPAG8, SPAG9, SPARCL1, SPART, SPAST, SPATA17, SPATA18, SPATA2, SPATA20,

SPATA2L, SPATA5, SPATC1L, SPATS2, SPATS2L, SPCS3, SPDEF, SPDL1, SPDYE2,

SPDYE2B, SPDYE3, SPDYE6, SPECC1L, SPEF1, SPEF2, SPEG, SPEN, SPG21, SPG7,

SPHK1, SPHK2, SPI1, SPIB, SPIC, SPIDR, SPIN1, SPIN2A, SPIN2B, SPIN4, SPINDOC,

SPINK5, SPINK7, SPINT2, SPIRE1, SPN, SPNS1, SPNS2, SPNS3, SPOCK2, SPON2,

SPOP, SPOUT1, SPP1, SPPL2B, SPPL3, SPRED1, SPRED2, SPRR1A, SPRR1B, SPRR2A,

SPRR2B, SPRR2D, SPRR2E, SPRR2F, SPRR2G, SPRR3, SPRY4, SPRYD3, SPRYD7,

SPSB2, SPTA1, SPTB, SPTBN1, SPTBN2, SPTBN5, SPTLC1, SPTLC3, SQLE, SQOR,

SQSTM1, SRA1, SRBD1, SRCAP, SRD5A1, SRD5A2, SRD5A3, SREBF1, SREBF2,

SREK1, SREK1IP1, SRF, SRFBP1, SRGAP2, SRGAP2B, SRGAP2C, SRGAP3, SRI, SRM,

SRP14, SRP72, SRPRA, SRPRB, SRR, SRRM1, SRRM2, SRRM4, SRRT, SRSF1, SRSF10,

SRSF11, SRSF2, SRSF3, SRSF4, SRSF5, SRSF6, SRSF7, SRSF9, SS18L1, SS18L2, SSB,

SSBP1, SSBP3, SSBP4, SSH1, SSNA1, SSPN, SSR2, SSR3, SSR4, SSRP1, SSTR2, SSTR3,

SSX2IP, STB, STM, ST3GAL1, ST3GAL2, ST3GAL6, ST6GAL1, ST6GALNAC1,

ST6GALNAC3, ST6GALNAC4, ST7, STAB1, STAC, STAC3, STAG1, STAG3, STAM,

STAM2, STAP1, STAP2, STARD13, STARD3, STARD3NL, STARD4, STARD5,

STARD7, STARD9, STAT1, STAT3, STAT4, STAT5A, STAT5B, STAT6, STATH,

STAU1, STAU2, STEAP1, STEAP1B, STEAP2, STIL, STIM1, STIMATE, STIMATE-

MUSTN1, STING1, STIP1, STK10, STK11, STK11IP, STK16, STK17A, STK17B, STK24,

STK25, STK26, STK3, STK32C, STK33, STK35, STK38, STK39, STK4, STK40, STMN1,

STMN3, STMND1, STMP1, STN1, STOML1, STON2, STOX1, STOX2, STPG1, STRADA,

STRADB, STRAP, STRBP, STRIP1, STRN3, STRN4, STT3A, STT3B, STUB1, STX10,

STX12, STX16, STX17, STX18, STX19, STX1A, STX2, STX5, STX6, STX7, STX8,

STXBP1, STXBP2, STXBP4, STXBP6, STYX, SUB1, SUCNR1, SUCO, SUDS3, SUFU,

SUGP1, SUGP2, SUGT1, SULF1, SULF2, SULT1A2, SULT1A3, SULT1A4, SULT1B1,

SULT1C2, SULT2B1, SUMF1, SUMF2, SUMO2, SUN1, SUN2, SUOX, SUPT16H,

SUPT5H, SUPV3L1, SURF1, SURF4, SURF6, SUSD3, SUSD6, SUV39H1, SUV39H2,

SV2A, SVEP1, SWAP70, SYBU, SYCP2, SYCP3, SYK, SYMPK, SYN1, SYNDIG1,

SYNE1, SYNE2, SYNE3, SYNGAP1, SYNGR1, SYNGR2, SYNJ1, SYNJ2BP, SYNM,

SYNPO, SYNPO2, SYNRG, SYS1, SYT11, SYT17, SYT6, SYTL1, SYTL2, SYTL3,

SYTL5, SYVN1, SZRD1, SZT2, TAB1, TAB2, TACC2, TACC3, TACSTD2, TADA1,

TADA2A, TADA3, TAF10, TAF13, TAF15, TAF1C, TAF3, TAF6, TAF6L, TAF8, TAF9,

TAF9B, TAGAP, TAGLN2, TAL1, TALDO1, TANC1, TANC2, TANGO2, TANK, TAOK1,

TAOK2, TAPI1, TAP2, TAPBP, TAPT1, TARBP2, TARDBP, TARS1, TAS1R3, TAS2RB,

TAS2R30, TASOR, TATDN2, TAX1BP1, TAX1BP3, TAZ, TBC1D10B, TBC1D10C,

TBC1D14, TBC1D15, TBC1D17, TBC1D22A, TBC1D23, TBC1D24, TBC1D25,

TBC1D2B, TBC1D3, TBC1D3C, TBC1D3D, TBC1D3E, TBC1D3H, TBC1D3I, TBC1D3K,

TBC1D5, TBC1D8B, TBC1D9B, TBCC, TBCD, TBCE, TBCEL, TBKBP1, TBL1X, TBL3,

TBP, TBPL1, TBRG1, TBRG4, TBX1, TBX19, TBX20, TBX21, TBXA2R, TBXAS1,

TCAF1, TCAF2, TCAIM, TCEA1, TCEA2, TCEA3, TCEAL1, TCEAL3, TCEAL4,

TCEAL8, TCEAL9, TCEANC2, TCF12, TCF25, TCF3, TCF7, TCF7L1, TCF7L2, TCHH,

TCHP, TCIRG1, TCL1A, TCTA, TCTE1, TCTEX1D1, TCTN1, TCTN2, TDG, TDP1,

TDP2, TDRD3, TDRD6, TDRD7, TDRD9, TEAD1, TEAD3, TECPR1, TECR, TEDC1,

TEKT1, TEKT2, TEKT4, TELO2, TENM1, TENM4, TENT2, TENT4A, TENT5A,

TENT5C, TEP1, TEPSIN, TERF1, TERF2IP, TES, TESC, TESK1, TESK2, TESMIN,

TESPA1, TET1, TET2, TET3, TEXM, TEX26, TEX261, TEX264, TEX9, TFAP2A,

TFAP2E, TFAP4, TFB2M, TFCP2L1, TFDP2, TFE3, TFEB, TFEC, TFF1, TFF2, TFF3,

TFPI, TFR2, TFRC, TG, TGFB1, TGFB2, TGFB3, TGFBI, TGFBR3, TGFBRAP1, TGM3,

TGOLN2, TGS1, THADA, THAP10, THAP5, THAP6, THAP8, THBS1, THEGL, THEMIS,

THEMIS2, THOC3, THOC5, THOC6, THOP1, THRA, THRAP3, THRB, THSD1, THTPA,

THUMPD3, THYN1, TIAF1, TIAL1, TIAM2, TICAM1, TIFA, TIGD1, TIGD5, TIGD6,

TIGIT, TIMM13, TIMM17B, TIMM21, TIMM22, TIMM23, TIMM23B, TIMM44,

TIMM50, TIMM8A, TIMM8B, TIMM9, TIMMDC1, TINAGL1, TINF2, TIPARP, TIPRL,

TIRAP, TJAP1, TJP1, TKFC, TKT, TKTL1, TLCD2, TLCD3A, TLCD5, TLE1, TLE3,

TLE5, TLK2, TLL1, TLN1, TLN2, TLR10, TLR2, TLR3, TLR4, TLR7, TLR8, TM2D2,

TM2D3, TM4SF1, TM7SF2, TM7SF3, TM9SF2, TM9SF3, TM9SF4, TMBIM1, TMBIM4,

TMBIM6, TMC5, TMC6, TMC8, TMCC1, TMCC2, TMCO1, TMCO3, TMCO5A, TMCO6,

TMED1, TMED3, TMED4, TMED6, TMED8, TMED9, TMEM102, TMEM104,

TMEM106A, TMEM106B, TMEM106C, TMEM109, TMEM11, TMEM115, TMEM120A,

TMEM120B, TMEM121B, TMEM126A, TMEM126B, TMEM127, TMEM129,

TMEM131L, TMEM132D, TMEM138, TMEM139, TMEM143, TMEM14A, TMEM14C,

TMEM150B, TMEM154, TMEM156, TMEM159, TMEM160, TMEM161A, TMEM161B,

TMEM164, TMEM167A, TMEM167B, TMEM168, TMEM170A, TMEM170B, TMEM175,

TMEM176B, TMEM179B, TMEM181, TMEM183A, TMEM184B, TMEM184C,

TMEM185A, TMEM186, TMEM191C, TMEM199, TMEM201, TMEM204, TMEM205,

TMEM208, TMEM209, TMEM212, TMEM214, TMEM216, TMEM217, TMEM222,

TMEM223, TMEM229B, TMEM232, TMEM237, TMEM241, TMEM242, TMEM248,

TMEM250, TMEM251, TMEM254, TMEM255A, TMEM259, TMEM263, TMEM266,

TMEM272, TMEM273, TMEM30B, TMEM33, TMEM38A, TMEM38B, TMEM39B,

TMEM40, TMEM41A, TMEM43, TMEM44, TMEM50A, TMEM50B, TMEM51,

TMEM52B, TMEM53, TMEM54, TMEM59, TMEM60, TMEM63A, TMEM63B, TMEM67,

TMEM68, TMEM69, TMEM71, TMEM79, TMEM80, TMEM86A, TMEM86B, TMEM87A,

TMEM87B, TMEM88, TMEM8B, TMEM94, TMEM97, TMIGD2, TMOD1, TMOD3,

TMPO, TMPPE, TMPRSS11A, TMPRSS11B, TMPRSS11D, TMPRSS11E, TMPRSS2,

TMPRSS4, TMPRSS9, TMSB10, TMSB4X, TMTC2, TMTC3, TMTC4, TMUB1, TMUB2,

TMX2, TMX4, TNC, TNFAIP1, TNFAIP2, TNFAIP3, TNFAIP6, TNFAIP8, TNFAIP8L1,

TNFAIP8L2, TNFRSF10A, TNFRSF10B, TNFRSF10C, TNFRSF10D, TNFRSF11A,

TNFRSF12A, TNFRSF13B, TNFRSF13C, TNFRSF14, TNFRSF17, TNFRSF19,

TNFRSF1B, TNFRSF21, TNFRSF25, TNFRSF4, TNFRSF8, TNFSF10, TNFSF11,

TNFSF12, TNFSF13, TNFSF13B, TNFSF15, TNFSF4, TNFSF8, TNFSF9, TNIP1, TNIP2,

TNIP3, TNK2, TNNI2, TNPO1, TNRC18, TNRC6B, TNS3, TNS4, TNXB, TOB1, TOB2,

TOGARAM2, TOLLIP, TOM1, TOM1L1, TOM1L2, TOMM20, TOMM34, TOMM40L,

TOMM5, TOMM7, TONSL, TOP1MT, TOP3A, TOPORS, TOR1B, TOR2A, TOR3A,

TOR4A, TOX2, TOX3, TP53BP1, TP53I13, TP53I3, TP53INP1, TP53RK, TP63, TPCN1,

TPCN2, TPD52, TPD52L1, TPD52L2, TPGS1, TPI1, TPM2, TPM4, TPP2, TPPP3, TPR,

TPRG1, TPRN, TPSB2, TPST2, TPT1, TRA2A, TRA2B, TRABD, TRABD2A, TRADD,

TRAF1, TRAF2, TRAF3IP1, TRAF3IP3, TRAF4, TRAF6, TRAF7, TRAM2, TRANK1,

TRAP1, TRAPPC1, TRAPPC10, TRAPPC13, TRAPPC2B, TRAPPC4, TRAPPC5,

TRAPPC6B, TRAPPC9, TRAT1, TREM2, TREML1, TREML2, TRERF1, TRGC1, TRHDE,

TRIAPI, TRIB1, TRIB2, TRIB3, TRIM10, TRIM11, TRIM13, TRIM14, TRIM16, TRIM2,

TRIM21, TRIM23, TRIM24, TRIM28, TRIM29, TRIM32, TRIM33, TRIM35, TRIM36,

TRIM39, TRIM41, TRIM44, TRIM46, TRIM47, TRIM5, TRIM52, TRIM56, TRIM58,

TRIM6, TRIM62, TRIM65, TRIM66, TRIM68, TRIM69, TRIM71, TRIM8, TRIO, TRIOBP,

TRIP10, TRIP11, TRIP13, TRIP6, TRIQK, TRIR, TRMT1, TRMT10C, TRMT11, TRMT1L,

TRMT2A, TRMT2B, TRMT5, TRMT6, TRMT61A, TRMT61B, TRMU, TRNAU1AP,

TROAP, TRPC4AP, TRPC6, TRPM2, TRPM3, TRPV2, TRPV4, TRUB2, TSACC, TSC1,

TSC2, TSC22D2, TSC22D3, TSC22D4, TSEN2, TSEN34, TSEN54, TSFM, TSG101,

TSGA10, TSHZ2, TSNARE1, TSNAX, TSPAN1, TSPAN11, TSPAN12, TSPAN14,

TSPAN15, TSPAN17, TSPAN18, TSPAN19, TSPAN2, TSPAN3, TSPAN31, TSPAN32,

TSPAN33, TSPAN5, TSPAN6, TSPAN8, TSPAN9, TSPO, TSPO2, TSPYL2, TSSC4,

TSSK4, TST, TSTA3, TSTD1, TSTD2, TTBK2, TTC1, TTC13, TTC14, TTC16, TTC17,

TTC21A, TTC22, TTC23, TTC24, TTC25, TTC26, TTC27, TTC29, TTC3, TTC30A,

TTC30B, TTC31, TTC32, TTC34, TTC37, TTC38, TTC39A, TTC5, TTC6, TTC7A, TTC7B,

TTC8, TTC9, TTF1, TTI1, TTL, TTLL1, TTLL11, TTLL12, TTLL3, TTLL5, TTLL6,

TTLL7, TTN, TTYH1, TTYH2, TTYH3, TUBA1C, TUBA4A, TUBA4B, TUBB, TUBB1,

TUBB2A, TUBB4B, TUBB6, TUBE1, TUBG1, TUBGCP2, TUBGCP3, TUBGCP6, TUFM,

TULP3, TULP4, TUSC1, TUSC2, TUSC3, TUSC7, TUT7, TWF2, TWISTNB, TWNK,

TWSG1, TXK, TXLNB, TXLNG, TXN, TXN2, TXNDC11, TXNDC12, TXNDC15,

TXNDC17, TXNDC5, TXNDC9, TXNRD1, TXNRD2, TXNRD3, TYK2, TYMP, TYROBP,

TYW1, TYWIB, TYW3, U2AF1, U2AF1L4, U2AF1L5, U2AF2, UACA, UAP1, UAP1L1,

UBA1, UBA2, UBA6, UBA7, UBAC2, UBALD1, UBALD2, UBAP1L, UBAP2, UBAP2L,

UBASH3A, UBASH3B, UBB, UBC, UBE2C, UBE2D3, UBE2D4, UBE2E1, UBE2F,

UBE2G1, UBE2G2, UBE2H, UBE2J2, UBE2L3, UBE2M, UBE2N, UBE2O, UBE2Q1,

UBE2Q2, UBE2S, UBE2V1, UBE2V2, UBE2W, UBE2Z, UBE3A, UBE3C, UBE3D,

UBE4A, UBFD1, UBIAD1, UBL3, UBL5, UBL7, UBN1, UBP1, UBQLNL, UBR1, UBR3,

UBR4, UBR5, UBR7, UBTD1, UBTD2, UBTF, UBXN1, UBXN10, UBXN11, UBXN2B,

UBXN6, UBXN7, UBXN8, UCHL1, UCK1, UCKL1, UCP1, UCP2, UEVLD, UFD1,

UGDH, UGGT1, UGGT2, UGP2, UGT2A1, UGT2B28, UGT3A2, UHRF1, UHRF1BP1,

UHRF1BP1L, UHRF2, ULBP2, ULK1, ULK4, UMAD1, UNC119, UNC119B, UNC13B,

UNC13D, UNC45A, UNC50, UNC5CL, UNC93B1, UNK, UNKL, UPB1, UPF1, UPF3A,

UPK1B, UPK3B, UPK3BL2, UPP1, UQCC2, UQCR10, UQCR11, UQCRB, UQCRC1,

UQCRH, UQCRQ, URB2, URM1, UROD, USF1, USF2, USF3, USO1, USP1, USP11,

USP14, USP15, USP19, USP20, USP21, USP22, USP25, USP31, USP32, USP35, USP38,

USP39, USP46, USP47, USP48, USP5, USP51, USP53, USP54, USP6NL, USP7, USP9X,

UST, UTP14A, UTP15, UTP18, UTP20, UTP25, UTP3, UTP4, UTP6, UTRN, UVSSA,

VAC14, VAMP1, VAMP2, VAMP3, VAMP4, VAMP8, VANGL2, VARS1, VARS2, VASP,

VAT1, VAV1, VAV2, VCAN, VCL, VCP, VCPIP1, VCPKMT, VDAC1, VDAC2, VEGFA,

VEGFB, VENTX, VEPH1, VEZF1, VEZT, VGLL1, VGLL3, VHL, VIL1, VILL, VIPR1,

VKORC1, VKORC1L1, VLDLR, VMAC, VMO1, VMP1, VNN1, VNN2, VNN3, VPREB3,

VPS13A, VPS13D, VPS16, VPS18, VPS26A, VPS26B, VPS28, VPS29, VPS33B, VPS35,

VPS37A, VPS37B, VPS39, VPS41, VPS4A, VPS4B, VPS50, VPS51, VPS52, VPS72,

VPS9D1, VRK1, VRK2, VRK3, VSIG1, VSIG10, VSIG10L, VSIG2, VSIR, VSNL1,

VSTM1, VSTM2L, VTA1, VTCN1, VTI1A, VWA3A, VWA3B, VWA5A, VWA8, VWF,

WAC, WAPL, WAS, WASF1, WASF2, WASHC1, WASHC4, WASHC5, WASL, WBP1,

WBP11, WBP2, WBP4, WDCP, WDFY1, WDFY2, WDFY4, WDHD1, WDR1, WDR11,

WDR13, WDR18, WDR19, WDR20, WDR24, WDR33, WDR34, WDR36, WDR37,

WDR38, WDR4, WDR43, WDR44, WDR45, WDR45B, WDR46, WDR49, WDR5, WDR55,

WDR59, WDR6, WDR60, WDR61, WDR62, WDR63, WDR66, WDR7, WDR70, WDR73,

WDR74, WDR76, WDR78, WDR81, WDR82, WDR83, WDR830S, WDR86, WDR89,

WDR90, WDR91, WDR92, WDR93, WDR97, WDTC1, WDYHV1, WFDC1, WFDC2,

WFDC3, WHAMM, WHRN, WIPF2, WIPI1 WIPI2, WIZ, WNK2, WNK3, WNT10B,

WNT11, WNT2B, WNT4, WNT5A, WRAP53, WRAP73, WRN, WRNIP1, WSB2, WWC1,

WWC2, WWC3, WWP2, WWTR1, XAB2, XAF1, XG, XIAP, XK, XKR6, XKR8, XPA,

XPC, XPNPEP1, XPNPEP3, XPO1, XPO4, XPO6, XPO7, XPOT, XRCC3, XRCC4, XRN1,

XRN2, XRRA1, XXYLT1, XYLT1, XYLT2, YAE1, YAP1, YARS1, YARS2, YBX3,

YEATS4, YES1, YIF1A, YIF1B, YIPF2, YIPF3, YIPF4, YIPF5, YIPF6, YJU2, YKT6,

YLPM1, YME1L1, YOD1, YPEL1, YPEL2, YPEL3, YPEL4, YPEL5, YRDC, YTHDC1,

YTHDF1, YTHDF2, YTHDF3, YWHAB, YWHAE, YWHAG, YWHAQ, YY1, ZADH2,

ZAP70, ZBBX, ZBED3, ZBED4, ZBED5, ZBED6CL, ZBED8, ZBP1, ZBTB1, ZBTB10,

ZBTB11, ZBTB16, ZBTB17, ZBTB18, ZBTB2, ZBTB21, ZBTB22, ZBTB24, ZBTB25,

ZBTB32, ZBTB34, ZBTB37, ZBTB38, ZBTB39, ZBTB40, ZBTB41, ZBTB43, ZBTB46,

ZBTB47, ZBTB48, ZBTB5, ZBTB6, ZBTB7B, ZBTB7C, ZBTB8OS, ZC3H11B, ZC3H12A,

ZC3H13, ZC3H14, ZC3H15, ZC3H3, ZC3H4, ZC3H6, ZC3H7B, ZC3HAV1L, ZCCHC10,

ZCCHC17, ZCCHC3, ZCCHC7, ZCCHC9, ZCRB1, ZDHHC11, ZDHHC12, ZDHHC16,

ZDHHC17, ZDHHC18, ZDHHC20, ZDHHC21, ZDHHC24, ZDHHC5, ZDHHC6, ZDHHC7,

ZDHHC8, ZEB2, ZER1, ZFAND1, ZFAND2A, ZFAND2B, ZFAND3, ZFAND5, ZFHX2,

ZFHX3, ZFP1, ZFP14, ZFP3, ZFP36, ZFP36L2, ZFP41, ZFP69B, ZFP91, ZFPL1, ZFPM1,

ZFR, ZFX, ZFYVE1, ZFYVE16, ZFYVE19, ZFYVE21, ZFYVE26, ZFYVE27, ZFYVE28,

ZFYVE9, ZG16B, ZGPAT, ZGRF1, ZHX1, ZKSCAN2, ZKSCAN5, ZKSCAN8, ZMAT1,

ZMAT5, ZMIZ1, ZMIZ2, ZMYM3, ZMYM4, ZMYM6, ZMYND10, ZMYND11,

ZMYND12, ZMYND19, ZMYND8, ZNF101, ZNF107, ZNF12, ZNF121, ZNF124, ZNF134,

ZNF135, ZNF138, ZNF14, ZNF141, ZNF142, ZNF148, ZNF16, ZNF160, ZNF169, ZNF175,

ZNF181, ZNF184, ZNF189, ZNF19, ZNF200, ZNF202, ZNF211, ZNF212, ZNF213,

ZNF214, ZNF217, ZNF219, ZNF22, ZNF222, ZNF224, ZNF226, ZNF230, ZNF232,

ZNF234, ZNF235, ZNF251, ZNF253, ZNF26, ZNF260, ZNF268, ZNF273, ZNF276,

ZNF277, ZNF28, ZNF280B, ZNF280D, ZNF281, ZNF282, ZNF283, ZNF285, ZNF287,

ZNF296, ZNF3, ZNF300, ZNF302, ZNF316, ZNF317, ZNF318, ZNF319, ZNF324,

ZNF324B, ZNF330, ZNF331, ZNF333, ZNF335, ZNF337, ZNF33B, ZNF34, ZNF341,

ZNF343, ZNF346, ZNF347, ZNF35, ZNF350, ZNF354B, ZNF354C, ZNF358, ZNF362,

ZNF365, ZNF367, ZNF37A, ZNF382, ZNF385A, ZNF394, ZNF395, ZNF407, ZNF408,

ZNF41, ZNF414, ZNF418, ZNF419, ZNF420, ZNF426, ZNF428, ZNF429, ZNF43, ZNF430,

ZNF431, ZNF436, ZNF438, ZNF439, ZNF440, ZNF441, ZNF442, ZNF444, ZNF445,

ZNF449, ZNF451, ZNF454, ZNF462, ZNF467, ZNF468, ZNF469, ZNF470, ZNF471,

ZNF473, ZNF474, ZNF48, ZNF480, ZNF484, ZNF486, ZNF493, ZNF500, ZNF501,

ZNF510, ZNF512, ZNF512B, ZNF513, ZNF514, ZNF516, ZNF518A, ZNF518B, ZNF524,

ZNF525, ZNF527, ZNF528, ZNF532, ZNF540, ZNF547, ZNF548, ZNF552, ZNF554,

ZNF555, ZNF557, ZNF561, ZNF562, ZNF564, ZNF566, ZNF569, ZNF570, ZNF572,

ZNF576, ZNF579, ZNF580, ZNF585B, ZNF586, ZNF587B, ZNF592, ZNF595, ZNF597,

ZNF598, ZNF599, ZNF605, ZNF606, ZNF607, ZNF610, ZNF611, ZNF613, ZNF614,

ZNF616, ZNF619, ZNF621, ZNF622, ZNF624, ZNF626, ZNF628, ZNF638, ZNF641,

ZNF644, ZNF646, ZNF649, ZNF654, ZNF658, ZNF66, ZNF665, ZNF668, ZNF675,

ZNF678, ZNF680, ZNF687, ZNF69, ZNF691, ZNF692, ZNF697, ZNF699, ZNF7, ZNF701,

ZNF704, ZNF706, ZNF707, ZNF708, ZNF71, ZNF710, ZNF713, ZNF721, ZNF727,

ZNF737, ZNF738, ZNF740, ZNF746, ZNF749, ZNF750, ZNF75D, ZNF76, ZNF761,

ZNF764, ZNF765, ZNF766, ZNF768, ZNF770, ZNF771, ZNF774, ZNF780B, ZNF782,

ZNF784, ZNF785, ZNF787, ZNF789, ZNF79, ZNF790, ZNF791, ZNF799, ZNF808, ZNF81,

ZNF813, ZNF816, ZNF821, ZNF823, ZNF829, ZNF83, ZNF831, ZNF835, ZNF836,

ZNF839, ZNF84, ZNF844, ZNF845, ZNF85, ZNF850, ZNF852, ZNF860, ZNF862, ZNF865,

ZNF880, ZNF888, ZNF891, ZNF90, ZNF91, ZNF92, ZNF93, ZNHIT3, ZNHIT6, ZP3,

ZPR1, ZRANB1, ZSCAN12, ZSCAN2, ZSCAN25, ZSCAN31, ZSCAN9, ZSWIMI,

ZSWIM4, ZSWIM7, ZSWIM8, ZSWIM9, ZW10, ZWILCH, ZWINT, ZXDB, ZXDC, ZYX,

ZZEF1

TABLE 7A

(Gene lists defining myeloid populations increased in 3 compartments

derived from co-expression analyses)

CoV-2 PBMC Myeloid A1

ADAMDEC1, ADGRE2, AIF1, AOAH, APOBEC3B, APOBR, APOC1, BST1, C1QA,

C1QB, C1QC, C1RL, C2, C4A, C4B, C4BPA, C5, C6, CCL18, CCL2, CCL7, CCL8, CD101,

CD14, CD163, CD209, CD300C, CD300E, CD300LF, CD33, CD68, CD80, CFD, CFP,

CLEC10A, CLEC12A, CLEC12B, CLEC16A, CLEC4A, CLEC4D, CLEC4E, CLEC5A,

CLEC6A, CLEC7A, CSF1R, CSF2RA, CSF2RB, CSF3R, CST3, CXCL10, CXCL11,

CXCL2, CXCL9, CYBA, CYBB, FCER1G, FCGR1A, FCGR1B, FCGR2A, FCGR2B,

FCGR2C, FGR, FLT3, FOLR2, FUT4, GRN, HVCN1, IFI30, IGSF6, IL10RA, IL18, IL1A,

IL1RAP, IL1RN, ITGAX, LGALS12, LGALS9, LILRA1, LILRA2, LILRA5, LILRA6,

LILRB1, LILRB2, LILRB3, LILRB4, LILRB5, LMNB1, LY86, LYVE1, LYZ, MARCO,

MEFV, MERTK, MFGE8, MNDA, MPEG1, MRC1, MS4A4A, MS4A6A, MSR1, NLRP12,

NLRP3, NOD2, NTSR1, OSCAR, OTOF, PECAM1, PILRA, PLEK, PRAM1, RNASE3,

RNASE6, RNASE7, S100A8, S100A9, SCARB1, SECTM1, SEMA4A, SERPINB9,

SERPING1, SIGLEC1, SIGLEC10, SIGLEC5, SIGLEC7, SKAP2, SLC11A1, SLITRK4,

SPI1, TGM2, THBD, TLR2, TLR8, TNF, TNFAIP8L2, TNFRSF1B, TNFSF13B, TREM1,

TREML4, TYROBP, UNC93B1, VENTX, VSIG4, VSTM1

CoV-2 Lung Myeloid A2

ADAMDEC1, ADGRE1, ADGRE2, AIF1, APOBEC3B, APOBEC3G, APOBR, APOC1,

BST1, C1QA, C1QB, C1QC, C2, C4BPA, C4BPB, C6, C8A, CCL18, CCL2, CCL22, CCL7,

CCL8, CD14, CD300E, CD33, CD80, CFD, CFP, CHI3L1, CHIT1, CLEC12A, CLEC12B,

CLEC1A, CLEC2B, CLEC4A, CLEC4D, CLEC4E, CLEC7A, CSF2, CSF2RB, CSF3R,

CST3, CXCL1, CXCL10, CXCL11, CXCL13, CXCL8, CXCR2, CYBA, CYBB, FCER1G,

FCGR1A, FCGR2A, FCGR2B, FCGR2C, FCGR3A, FCGR3B, FFAR2, FGR, FOLR2, GRN,

IFNL1, IGSF6, IL12B, IL18, IL18RAP, IL1A, IL1B, IL1RAP, IL1RN, IL20, IL23A, IL27,

ITGAX, LAMP3, LGALS9, LGALS9C, LILRA5, LILRA6, LILRB1, LILRB2, LILRB3,

LILRB4, LILRB5, LMNB1, LY86, LYZ, MNDA, MPEG1, MS4A4A, MS4A6A, MSR1,

NLRP3, OLR1, OTOF, PDCD1LG2, PILRA, PLEK, S100A8, S100A9, S1PR5, SECTM1,

SEMA4A, SERPINB9, SERPING1, SIGLEC14, SIGLEC5, SLPI, SPI1, TLR2, TNF,

TNFSF13B, TNFSF14, TNIP3, TREM1, TREML4, TYROBP, UNC93B1, VSIG4

CoV-2 BAL Myeloid A3

ACE, ADAMDEC1, ADGRE3, AIF1, APOBEC3G, APOC1, C1QA, C1QB, C1QC, C1R,

C2, C4BPA, C5, C6, CCL18, CCL2, CCL28, CCL7, CCL8, CD163, CD300LF, CD5L,

CD68, CD80, CHI3L1, CLEC2B, CLEC4E, CLEC5A, CLEC6A, CXCL1, CXCL10,

CXCL11, CXCL2, CXCL8, CXCL9, CXCR2, FCER1G, FCGR1A, FCGR1B, FCGR2A,

FCGR2C, FCGR3A, FCGR3B, FOLR2, IGSF6, IK, IL18, IL1A, IL1B, IL1RN, IL23A,

LAMP3, LGALS9B, LGALS9C, LILRB4, LILRB5, LY86, LYVE1, MARCO, MERTK,

MNDA, MRC1, MS4A4A, MSR1, OLR1, OTOF, PDCD1LG2, PILRA, RNASE7, SCARB1,

SERPING1, SIGLEC1, SIGLEC14, SIGLEC5, SIGLEC7, SKAP2, SLAMF8, SLPI, STAP2,

TGM2, TLR8, TNF, TNFAIP8L2, TNFSF13B, TNIP3, TYROBP, VSIG4

TABLE 7B

(Overlapping genes in co-expression derived myeloid subpopulations

between 3 compartments)

PBMC/Lung/BAL

ADAMDEC1, AIF1, APOC1, C1QA, C1QB, C1QC, C2, C4BPA, C6, CCL18, CCL2, CCL7,

CCL8, CD80, CLEC4E, CXCL10, CXCL11, FCER1G, FCGR1A, FCGR2A, FCGR2C,

FOLR2, IGSF6, IL18, IL1A, IL1RN, LILRB4, LILRB5, LY86, MNDA, MS4A4A, MSR1,

OTOF, PILRA, SERPING1, SIGLEC5, TNF, TNFSF13B, TYROBP, VSIG4

PBMC/Lung

ADGRE2, APOBEC3B, APOBR, BST1, CD14, CD300E, CD33, CFD, CFP, CLEC12A,

CLEC12B, CLEC4A, CLEC4D, CLEC7A, CSF2RB, CSF3R, CST3, CYBA, CYBB,

FCGR2B, FGR, GRN, IL1RAP, ITGAX, LGALS9, LILRA5, LILRA6, LILRB1, LILRB2,

LILRB3, LMNB1, LYZ, MPEG1, MS4A6A, NLRP3, PLEK, S100A8, S100A9, SECTM1,

SEMA4A, SERPINB9, SPI1, TLR2, TREM1, TREML4, UNC93B1

PBMC/BAL

C5, CD163, CD300LF, CD68, CLEC5A, CLEC6A, CXCL2, CXCL9, FCGR1B, LYVE1,

MARCO, MERTK, MRC1, RNASE7, SCARB1, SIGLEC1, SIGLEC7, SKAP2, TGM2,

TLR8, TNFAIP8L2

Lung/BAL

APOBEC3G, CHI3L1, CLEC2B, CXCL1, CXCL8, CXCR2, FCGR3A, FCGR3B, IL1B,

IL23A, LAMP3, LGALS9C, OLR1, PDCD1LG2, SIGLEC14, SLPI, TNIP3

PBMC

AOAH, C1RL, C4A, C4B, CD101, CD209, CD300C, CLEC10A, CLEC16A, CSF1R,

CSF2RA, FLT3, FUT4, HVCN1, IFI30, IL10RA, LGALS12, LILRA1, LILRA2, MEFV,

MFGE8, NLRP12, NOD2, NTSR1, OSCAR, PECAM1, PRAM1, RNASE3, RNASE6,

SIGLEC10, SLC11A1, SLITRK4, THBD, TNFRSF1B, VENTX, VSTM1

Lung

ADGRE1, C4BPB, C8A, CCL22, CHIT1, CLEC1A, CSF2, CXCL13, FFAR2, IFNL1,

IL12B, IL18RAP, IL20, IL27, S1PR5, TNFSF14

BAL

ACE, ADGRE3, C1R, CCL28, CD5L, IK, LGALS9B, SLAMF8, STAP2

TABLE 7C

(Input genes to trajectory analysis)

AASS, ABCD1, ABCD2, ABCD3, ACAA2, ACACB, ACADM, ACADS, ACADVL,

ACAT1, ACAT2, ACE, ACO2, ACOX1, ACOX2, ACOX3, ACOXL, ACSL1, ACSL5,

ADAM8, ADAMDEC1, ADGRE1, ADGRE2, ADGRE3, ADK, AIF1, AIM2, AK3, AKT2,

ALDH4A1, ALDH7A1, ALOX15, AOAH, APOBEC3B, APOBEC3G, APOBR, APOC1,

APOL1, APOL2, APOL3, APOL6, ARG1, ART4, ATF3, ATP5A1, ATP5B, ATP5D,

ATP5E, ATP5F1, ATP5G1, ATP5G2, ATP5G3, ATP5H, ATP5I, ATP5J, ATP5J2, ATP5L,

ATP5O, ATP5S, AUH, BATF2, BATF3, BCL2A1, BCS1L, BDH2, BIRC3, BMX, BST1,

BTK, C16orf54, C1QA, C1QB, C1QC, C1R, C1RL, C2, C4A, C4B, C4BPA, C4BPB, C5,

C6, C8A, CA2, CASP1, CASP10, CCL13, CCL15, CCL18, CCL19, CCL2, CCL20, CCL22,

CCL23, CCL28, CCL5, CCL7, CCL8, CCND2, CCR7, CD101, CD14, CD163, CD180,

CD209, CD274, CD300A, CD300C, CD300E, CD300LF, CD33, CD36, CD38, CD4, CD40,

CD52, CD5L, CD68, CD72, CD80, CD86, CDKN1A, CEACAM1, CEP89, CERK, CFB,

CFD, CFP, CHI3L1, CHI3L2, CHIT1, CLEC10A, CLEC12A, CLEC12B, CLEC16A,

CLEC1A, CLEC2B, CLEC4A, CLEC4D, CLEC4E, CLEC4F, CLEC5A, CLEC6A,

CLEC7A, CNR2, COA1, COA3, COA4, COA5, COA6, COA7, COX10, COX10-AS1,

COX11, COX14, COX15, COX16, COX17, COX18, COX19, COX20, COX4I1, COX4I2,

COX5A, COX5B, COX6A1, COX6B1, COX6C, COX7A1, COX7A2, COX7A2L, COX7B,

COX7C, COX8A, CPT1A, CPT2, CROT, CS, CSAG3, CSF1R, CSF2, CSF2RA, CSF2RB,

CSF3R, CST3, CTSC, CXCL1, CXCL10, CXCL11, CXCL13, CXCL2, CXCL8, CXCL9,

CXCR2, CXCR4, CYBA, CYBB, CYC1, CYCS, DECR1, DEF6, DLAT, DLC1, DLD,

DLST, DNAJC15, DOCK8, EBI3, ECHDC1, ECHDC2, ECHS1, ECI1, ECI2, EDN1, EGR2,

EHHADH, EPB41, ETFA, ETFB, ETFDH, F8, FAS, FCAR, FCER1A, FCER1G, FCER2,

FCGR1A, FCGR1B, FCGR2A, FCGR2B, FCGR2C, FCGR3A, FCGR3B, FDCSP, FFAR2,

FGL2, FGR, FH, FLT3, FN1, FOLR2, FUT4, FYB1, G6PD, GAD1, GADD45B, GADD45G,

GBP1, GBP2, GCDH, GCH1, GCNT1, GIMAP2, GIMAP4, GIMAP5, GLS, GLUD1, GOT1,

GPR18, GPR84, GRHPR, GRN, H6PD, HAAO, HACL1, HADH, HADHA, HADHB,

HAVCR2, HBG2, HCK, HESX1, HEXB, HHLA2, HIBCH, HLX, HNMT, HRH1, HS3ST1,

HS3ST2, HSD11B1, HSD17B4, HVCN1, IDH1, IDH2, IDH3A, IDH3B, IDH3G, IDO1,

IER3, IFI27, IFI30, IFI44, IFNL1, IGF1, IGFBP4, IGSF6, IK, IL10RA, IL12A, IL12B, IL15,

IL15RA, IL18, IL18R1, IL18RAP, IL1A, IL1B, IL1RAP, IL1RN, IL20, IL23A, IL27,

IL2RA, IL2RG, IL31RA, IL4I1, IL6, IL7R, INHBA, IRF1, IRF7, IRS1, IRS2, ITGAM,

ITGAX, IVD, JAK2, LAIR1, LAMP3, LAP3, LAT, LCP2, LDHAL6B, LGALS12, LGALS9,

LGALS9B, LGALS9C, LILRA1, LILRA2, LILRA5, LILRA6, LILRB1, LILRB2, LILRB3,

LILRB4, LILRB5, LIPA, LMNB1, LPAR6, LTA4H, LY75, LY86, LYVE1, LYZ, MAF,

MARCO, MCCC2, MDH2, MEFV, MERTK, MFGE8, MNDA, MPC1, MPC2, MPEG1,

MRC1, MRPS15, MS4A4A, MS4A6A, MSR1, MT-ATP6, MT-ATP8, MT-CO1, MT-CO2,

MT-CO3, MT-CYB, MT-ND1, MT-ND2, MT-ND3, MT-ND4, MT-ND4L, MT-ND5, MT-

ND6, NAMPT, NDUFA1, NDUFA10, NDUFA11, NDUFA12, NDUFA13, NDUFA2,

NDUFA3, NDUFA4, NDUFA4L2, NDUFA5, NDUFA6, NDUFA8, NDUFA9, NDUFAB1,

NDUFAF1, NDUFAF2, NDUFAF3, NDUFAF4, NDUFAF5, NDUFAF6, NDUFAF7,

NDUFAF8, NDUFB1, NDUFB10, NDUFB11, NDUFB2, NDUFB3, NDUFB4, NDUFB5,

NDUFB6, NDUFB7, NDUFB8, NDUFB9, NDUFC1, NDUFC2, NDUFS1, NDUFS2,

NDUFS3, NDUFS4, NDUFS5, NDUFS6, NDUFS7, NDUFS8, NDUFV1, NDUFV2,

NDUFV3, NKTR, NLRP12, NLRP3, NOD2, NR3C1, NTSR1, NUBPL, OAS1, OAS2,

OAS3, OASL, OAT, OGDH, OLR1, OSCAR, OTOF, OXA1L, OXCT1, P2RY13, P2RY14,

PC, PDCD1LG2, PDGFA, PDHA1, PDHB, PDHX, PDK1, PDK2, PDK3, PDK4, PDP1,

PDP2, PDPR, PECAM1, PEX13, PEX2, PEX5, PEX7, PFKFB2, PFKFB3, PFKFB4, PFKP,

PGD, PHYH, PIK3AP1, PILRA, PKM, PLA1A, PLA2G5, PLEK, POU2F2, PRAM1, PRPS1,

PRPS2, PSAT1, PSMA2, PSMB9, PSME2, PSTPIP1, PTCH1, PTPN7, PTX3, PYHIN1,

RBKS, RGN, RGS1, RNASE3, RNASE6, RNASE7, RPE, RPIA, S100A8, S100A9, S1PR5,

SAMSN1, SCARB1, SCO1, SDHA, SDHAF1, SDHAF2, SDHAF3, SDHAF4, SDHB,

SDHC, SDHD, SDS, SECTM1, SELENOP, SEMA4A, SERPINB9, SERPING1, SESN2,

SIGLEC1, SIGLEC10, SIGLEC14, SIGLEC5, SIGLEC7, SKAP2, SLAMF7, SLAMF8,

SLC11A1, SLC25A17, SLC25A4, SLC27A2, SLC2A1, SLC2A3, SLC2A4, SLC2A5,

SLC2A6, SLC31A2, SLC38A6, SLC4A7, SLC7A5, SLCO2B1, SLCO5A1, SLITRK4, SLPI,

SOCS1, SP100, SPHK1, SPI1, SRGN, STAP2, STAT1, STAT2, STX11, SUCLA2,

SUCLG1, SUCLG2, SURF1, TACO1, TALDO1, TAP1, TAP2, TEK, TGFBI, TGFBR2,

TGM2, THBD, THEMIS2, TIMMDC1, TKT, TKTL1, TLR1, TLR2, TLR5, TLR8,

TMEM126B, TMEM154, TNF, TNFAIP8L2, TNFRSF11A, TNFRSF1B, TNFSF10,

TNFSF13B, TNFSF14, TNFSF4, TNFSF8, TNFSF9, TNIP3, TPST2, TRAP1, TREM1,

TREML2, TREML4, TTC19, TYROBP, UBE2L6, ULBP1, ULBP2, UNC93B1, UQCC1,

UQCC2, UQCC3, UQCR10, UQCR11, UQCRB, UQCRC1, UQCRC2, UQCRFS1, UQCRH,

UQCRHL, UQCRQ, VCAM1, VCAN, VENTX, VSIG4, VSTM1, WARS, XAF1

TABLE 8A

(Drugs and compounds targeting IPA upstream regulators via blood,

lung, or airway)

PBMC-CoV2 vs. PBMC-CTL (Blood)

IFNG: Amg 811‡

CSF1: Sunitinib†

Anti-IL6: Imiquimod†, PF-04236921‡, Siltuximab†, Sirukumab‡, Sarilumab†, Tocilizumab†,

Vobarilizumab‡

Anti-IFNA: AGS-009‡, Rontalizumab‡, Sifalimumab‡, Anifrolumab‡

CD38: Daratumumab†, TAK-079‡

TNKS: XAV-939^P

TGFB1: SB-431542^P, SB-525334^P,

EGFR inhibitors: Brigatinib†, Dacomitinib†, Erlotinib†, Gefitinib†, Lapatinib†, Osimertinib†,

Vandetanib†, CGP-52411^P, Afatinib†, AG-490^P, AG-494^P, BIBU-1361^PBIBX-1382‡,

Butein^P, CP-724714‡, Erbstatin-analog^P, Lavendustin-a, Lavendustin-c, RG-13022,

Tyrphostin, TYRPHOSTIN-1, TYRPHOSTIN-AG-1478^P, TYRPHOSTIN-AG-18^P,

TYRPHOSTIN-AG-494^P, TYRPHOSTIN-AG-555, TYRPHOSTIN-AG-82, TYRPHOSTIN-

AG-835^P, WZ-3146^P, WZ-4002^P, Neratinib†, AEE788‡, ARRY-334543‡, AST-1306‡, AV-

412‡, AZD8931‡, BMS-599626‡, BMS-690514‡, Canertinib‡, CUDC-101‡, FERb-033^P,

GW-583340^P, Mubritinib‡, PD-168393^P, Poziotinib‡, TAK-285‡, Tucatinib‡, Tyrphostin-AG-

825^P, Tyrphostin-AG-879^P, XL647‡

ERBB2: EGFR inhibitors

INSR inhibitors: Ceritinib†, Dovitinib‡, GSK1838705A^P, GSK1904529A^P, Linsitinib‡, NVP-

AEW541^P, NVP-TAE684^P

BRD4: LY-303511^P, AT-7519‡, Alvocidib‡, Roscovitine‡

VEGFR inhibitors: Lenvatinib†, Pazopanib†, Sorafenib†, Sunitinib†, ZM-306416^P

AKT inhibitors: 10-DEBC^P, A-443644, BML-257, Deguelin, Lonidamine†, Miltefosine†,

MK-2206‡

PPARG: Acetyl-farnesyl-cysteine†, T-0070907^P

PPARA: 2-fluoropalmitic-acid, GW-6471^P

HIF1A: CAY-10585, YC-1^P, 1-Benzylimidazole

STAT1: Sinensetin

IGF1R inhibitors: BMS-536924^P, BMS-754807‡, Ceritinib†, GSK-1904529A^P, Linsitinib‡,

PQ-401^P

BAX: BAX-Channel-Blocker

Drugs Predicted As Upstream Regulators (Inhibited): GnRH analog, Levodopa†, MEL S3,

Calcitriol†, CD 437, Ciprofloxacin†, ST1926, 5-fluorouracil†, Sirolimus†,

Medroxyprogesterone acetate†, Valproic acid†, BMS-690514‡, Panobinostat†, BMS-754807‡

Lung-CoV2 vs. Lung-CTL (Lung)

NFxB pathway inhibitors: CAY-10470^P, Quinacrine†, Quinoclamine, Auranofin†, BAY-11-

7082^P, BAY-11-7085^P, Betulinic-acid‡, Bicyclol†, Bindarit‡, Bortezomib†, Cepharanthine‡,

CKD-712‡, Closantel†, Curcumin†, Edasalonexent†, Erythromycin†, EVP4593^P, E3330^P,

Ginsenoside-C-K‡, Hexamethylenebisacetamide‡, Iguratimod†, IKK-2-inhibitor-V‡, MD-

920‡, NFKB-activation-inhibitor-II^P, Parthenolide‡, Parthenolide-(-)^P, Parthenolide-

(alternate-stereo)^P, Pyrrolidine-dithiocarbamate^P, Ro-106-9920^P, Sasapyrine†, Sesamin^P, SP-

100030^P, Ursolic-acid‡, Verbascoside‡

IL12: Ustekinumab†

Lymphotoxin: Etanercept†

IFNG: Amg 811‡

Anti-IL17: Brodalumab†, Ixekizumab†, Secukinumab†

Anti-TNF: Etanercept†, Adalimumab†, Certolizumab pegol†, Golimumab†, Infliximab†

Anti-IFNA: AGS-009‡, Rontalizumab‡, Sifalimumab‡, Anifrolumab‡

Anti-IL1: Canakinumab†, Anakinra†

IFNB1: PF-06823859‡

TNFSF12: BIIB023‡

TGM2: GK921^P, LDN-27219^P

RNASE1: Citric acid^P, Guanidine†, L-aspartic-acid†

APC: JW-67^P

NOS2: AR-C133057XX, Diphenyleneiodonium^P, Pyrrolidine-dithiocarbamate^P

ETV6-NTRK3: Entrectinib†, GNF-5837^P, Larotrectinib†

Interferon: Anti-IFNA, Amg 811†, Anti-IFN OMEGA‡, PF-06823859‡

JAK inhibitors: AT-9283‡, Baricitinib†, Cucurbitacin-I, Filgotinib‡, Ruxolitinib†, Solcitinib‡,

Tofacitinib†, Upadacitinib†, AG-490^P, Atiprimod, Atractylenolide-i^P, AZD1480‡, AZ960^P,

BMS-911543‡, CEP-33779^P, Curcumol‡, cyt387‡, Decernotinib‡, Delgocitinib‡, Fedratinib†,

Ganoderic-acid-a^P, Itacitinib‡, JAK3-inhibitor-V^P, LY2784544‡, NS-018‡, NVP-BSK805^P,

Pacritinib‡, Peficitinib†, PF-06651600‡, Ruxolitinib-(S)^P, TCS-21311^P, TG-02‡, TG-

101209^P, Thiram†, WHI-P154^P, XL019‡, ZM-39923^P, 1,2,3,4,5,6-hexabromocyclohexane^P

Tlr: Hydroxychloroquine†

Tnf (family) inhibitors: Anti-TNF, Dapirolizumab pegol‡, BIIB023t, Atacicept‡, RC18‡,

Amg 570‡, Belimumab†, Blisibimod‡, Tabalumab‡

Drugs Predicted As Upstream Regulators (Inhibited): Alefacept, Etanercept†, Fontolizumab,

Leuprolide†, Hydrogen peroxide, AT^P, Hydroquinone†, Nitric oxide, Estriol†,

Norepinephrine†, D-glucose, Sphingosine-1-phosphate, Dexamethasone†,

Methylprednisolone†, Raloxifene†, 3-deazaneplanocin^P, Dalfampridine†,

Medroxyprogesterone acetate†. Lithium chloride, Chloropromazine, Tofacitinib†,

Nelfinavir†, Chloroquine†, Quercetin†

BAL-CoV2 vs. PBMC-CoV2 (Airway)

Anti-IL17: Brodalumab†, Ixekizumab†, Secukinumab†

CD3: Blinatumomab†

FCER1: Omalizumab

PXR-ligand-PXR-Retinoic acid-RXRα: Retinol†, Fenretinide†

IL13: Lebrikizumab†

IL2: Daclizumab†

FLT3LG: Midostaurin†, Quizartinib‡, Sorafenib†, TCS-359^P

IL3: Talacotuzumab†

LIPE: Oxybenzonet†, Benzyl-benzoate†

B4GALNT1: Dinutuximab†

SIRT3: Tenovin-6^P

RNASE1: Citric acid^P, Guanidine†, L-aspartic-acid†

EWSR1-FLI1: YK-4-279^P

Nr1h: GW-4064^P

Anti-Hsp90: Alvespimycin‡, BIIB021‡, Gedunin^P, Geldanamycin^P, NVP-AUY922‡, PU-

H71‡, Radicicol, Tanespimycin‡

IL12: Ustekinumab†

JAK inhibitors: AT-9283‡, Baricitinib†, Cucurbitacin-I, Filgotinib‡, Ruxolitinib†, Solcitinib‡,

Tofacitinib†, Upadacitinib†, AG-490^P, Atiprimod‡, Atractylenolide-i^P, AZD1480‡, AZ960^P,

BMS-911543‡, CEP-33779^P, Curcumol‡, cyt387‡, Decernotinib‡, Delgocitinib‡, Fedratinib†,

Ganoderic-acid-a^P, Itacitinib‡, JAK3-inhibitor-V^P, LY2784544‡, NS-018‡, NVP-BSK805^P,

Pacritinib, Peficitinib‡, PF-06651600‡, Ruxolitinib-(S)^P, TCS-21311^P, TG-02‡, TG-

101209^P, Thiram†, WHI-P154^P, XL019t, ZM-39923^P, 1,2,3,4,5,6-hexabromocyclohexane^P

PRKCQ: Afimoxifene‡, Dexfosfoserine^P, GSK690693‡, Sotrastaurin‡, Tamoxifen†

LCK: Aminogenistein, JW-7-24-1, PP-2^P, WH-4023

ROCK inhibitors: Fasudil†, Ripasudil†, GSK-429286A^P, GSK-269962^P, KD025‡, LX7101‡,

OXA-06^P, RKI-1447^P, SB-772077B^P, SR-3677^P, Y-39983†, Y-27632^P

Estrogen receptor antagonists: Tamoxifen†, Acolbifene‡, Afimoxifene‡, Clomifene†,

Danazol†, Endoxifen‡, Fulvestrant†, G-15^P, GDC-0927‡, PHTPP^P, Raloxifene†,

Toremifene†, Y-134^P, ZK-164015^P

AR: Androstenedione, BMS-641988, Enzalutamide†, Flutamide†, Nilutamide†

SNH: SANT-1^P, SANT-2^P

STATE Sinensetin

EPAS1: Cephaeline, YC-1^P, TC-S-7009^P, PT-2385‡

GATA3: Cyclosporin-a†, Simvastatin†, Tacrolimus†

TEAD2: Oleoylethanolamide^P

IKZF3: Lenalidomide†

ATF2: Ephedrine-(racemic)†

ITGB2: BMS-587101‡, Simvastatin†

TLR3: CU-CPT-4a^P

Anti-IL6: Imiquimod†, PF-04236921‡, Siltuximab†, Sirukumab‡, Sarilumab†, Tocilizumab†,

Vobarilizumab‡

Drugs Predicted As Upstream Regulators (Inhibited): 15-deoxy-delta-12, 14-PGJ 2,

Hydrocortisone†, SB203580, JAK inhibitor I, UM101, Z-DEVD-FMK, Triptolide‡,

Etretinate{circumflex over ( )}

Legend: †FDA-approved; ‡Drug in development/clinical trials; ^PPreclinical; {circumflex over ( )}Withdrawn from market

TABLE 8B

(Unique IPA-predicted drugs by mechanism of action in blood, lung, or airway)

PBMC (blood)

Abl kinase inhibitor, ACE inhibitor, activator of soluble guanylyl cyclase, ALK tyrosine

kinase receptor mutant inhibitor, Anti-CD38, Anti-IFNAR1, Anti-IFNG, Anti-IL6, Anti-IL6

receptor, Anti-TNF, apoptosis stimulant, bacterial DNA gyrase inhibitor, Benzodiazepine

receptor agonist, CCR expression inhibitor, cell cycle inhibitor, COX inhibitor, CSFR

antagonist, cytochrome C release inhibitor, dopamine precursor, ErbB2 tyrosine kinase

inhibitor, FGFR inhibitor, glucokinase inhibitor, GnRH agonist, hypercalcaemic agent,

hypoxia inducible factor inhibitor, IFNA inhibitor, inhibitor of methylation of endogenous

isoprenylated proteins, insulin growth factor receptor inhibitor, insulin receptor ligand,

interferon inducer, interleukin inhibitor, kinase inhibitor, KIT inhibitor, Leucine rich repeat

kinase inhibitor, MCL1 inhibitor, membrane integrity inhibitor, NADH-ubiquinone

oxidoreductase (Complex I) inhibitor, NFκB pathway inhibitor, PDGFR inhibitor, phorbol

ester-induced ornithine decarboxylase (ODC) activity suppressor, PPAR receptor antagonist,

Proteasome inhibitor, RAF inhibitor, receptor tyrosine protein kinase inhibitor, RET tyrosine

kinase inhibitor, SIRT activator, Src inhibitor, Src tyrosine kinase inhibitor, steroid 5alpha-

reductase inhibitor, survivin inhibitor, T cell inhibitor, TGF beta receptor inhibitor,

thromboxane synthase inhibitor, thymidylate synthase inhibitor, TLR agonist, TNKS

inhibitor, tyrosine kinase inhibitor, VEGFR inhibitor, vitamin D receptor agonist, XIAP

inhibitor

Lung

Abl kinase inhibitor, acetylcholinesterase inhibitor, adiponectin receptor agonist, adrenergic

receptor agonist, aldehyde dehydrogenase inhibitor, aldose reductase inhibitor, algicide, ALK

expression enhancer, Anti-CD2, Anti-CD40LG, Anti-ICOSLG, Anti-IFNAR1, Anti-IFNB1,

Anti-IFNG, Anti-IFNW1, Anti-IL1, Anti-IL17, Anti-IL17 receptor, antimalarial agent, Anti-

TNF, Anti-TNFSF12, Anti-TNFSF13, Anti-TNFSF13B, AP inhibitor, apoptosis stimulant,

Bcr-Abl kinase inhibitor, CCN expression inhibitor, chitinase inhibitor, cholesterol inhibitor,

coagulation factor inhibitor, corticosteroid agonist, COX inhibitor, cytochrome P450 inhibitor,

cytokine production inhibitor, diacylglycerol O acyltransferase inhibitor, differentiation

inducer, disease modifying antirheumatic drug, DNA inhibitor, DNA methyltransferase

inhibitor, endoglin expression enhancer, ErbB2 tyrosine kinase inhibitor, Estrogen receptor

agonist, free radical scavenger, FtsZ inhibitor, glucocorticoid receptor modulator, glucose 6

phosphatase inhibitor, glucosidase inhibitor, GnRH agonist, growth factor receptor inhibitor,

histone lysine methyltransferase inhibitor, histone N-acetyltransferase inhibitor, HIV integrase

inhibitor, HIV protease inhibitor, IFNA inhibitor, IL12/23 inhibitor, immunosuppressant,

lipocortin synthesis stimulant, lipoxygenase inhibitor, MAPK inhibitor, melanin inhibitor,

metallic radical formation stimulant, mitotic inhibitor, monoamine oxidase inhibitor, NADPH

oxidase inhibitor, NFκB pathway activator, NFκB pathway inhibitor, nitric oxide synthase

inhibitor, phospholipase inhibitor, polar auxin transport inhibitor, potassium channel blocker,

prostanoid receptor antagonist, Proteasome inhibitor, proto-oncogene tyrosine protein kinase

inhibitor, quorum sensing signaling modulator, SARS coronavirus 3C-like protease inhibitor,

selective estrogen receptor modulator, SIRT activator, sodium channel blocker, STAT

inhibitor, steroidal receptor agonist, tau aggregation inhibitor, thioredoxin reductase inhibitor,

tissue transglutaminase inhibitor, TP53 activator, transglutaminase inhibitor, tropomyosin

receptor kinase inhibitor, tyrosine kinase inhibitor, WNT pathway inhibitor, xanthine oxidase

inhibitor

BAL (airway)

Abl kinase inhibitor, activator of soluble guanylyl cyclase, adrenergic receptor agonist, ALK

expression enhancer, Anti-B4GALNT1, Anti-CD19, Anti-CD3, Anti-FCER1A, Anti-IL13,

Anti-IL17, Anti-IL17 receptor, Anti-IL2R, Anti-IL3R, Anti-IL6, Anti-IL6 receptor, Anti-

MS4A2, Anti-TNF, apoptosis stimulant, AR antagonist, ATP citrase lyase inhibitor, Bcr-Abl

kinase inhibitor, binding of RNA helicase A to the transcription factor EWS-FLI1 inhibitor,

calcium channel activator, calcium sensitizer, cell cycle inhibitor, cereblon inhibitor,

cholesterol inhibitor, coagulation factor inhibitor, colony stimulating factor, corticosteroid

agonist, COX inhibitor, cyclin inhibitor, cyclophilin inhibitor, cytochrome P450 inhibitor,

disease modifying antirheumatic drug, DNA directed DNA polymerase inhibitor, endoglin

expression enhancer, ErbB2 tyrosine kinase inhibitor, Estrogen receptor agonist, estrogen

receptor modulator, EWS-FLI1 inhibitor, FK506-binding protein inhibitor, FXR agonist,

glucose-dependent insulinotropic receptor agonist, histamine release inhibitor, hypoxia

inducible factor inhibitor, IL12/23 inhibitor, immunostimulant, immunosuppressant, insulin

expression inhibitor, integrin antagonist, interferon inducer, interleukin inhibitor, kinase

inhibitor, KIT inhibitor, LCK inhibitor, Leucine rich repeat kinase inhibitor, LIM kinase

inhibitor, lipase inhibitor, lipocortin synthesis stimulant, luteinizing hormone releasing

hormone antagonist, macrolide calcineurin inhibitor, MAPK inhibitor, membrane integrity

inhibitor, metallic radical formation stimulant, mitotic inhibitor, multi targeted kinase

inhibitor, opioid receptor ligand, PKA inhibitor, potassium channel blocker, PPAR receptor

agonist, PPAR receptor antagonist, protease inhibitor, pyruvate dehydrogenase kinase

inhibitor, RAF inhibitor, RET tyrosine kinase inhibitor, retinoid receptor agonist, RNA

directed RNA polymerase inhibitor, ROCK inhibitor, rotamase inhibitor, selective estrogen

receptor modulator, SIRT inhibitor, soluble epoxide hydrolase inhibitor, Src inhibitor, STAT

inhibitor, steroid derivative with antigonadotropic and anti-estrogenic activities, stress

activated protein kinase inhibitor, T cell inhibitor, testosterone receptor agonist, TLR agonist,

TLR inhibitor, TNF modulator, tumor apoptosis inducer, tyrosine kinase inhibitor, VEGFR

inhibitor

Legend: † FDA-approved; ‡ Drug in development/clinical trials; ^PPreclinical; {circumflex over ( )} Withdrawn from market

Further details are described by, for example, Daamen et al., “Comprehensive transcriptomic analysis of COVID-19 blood, lung, and airway”, Scientific Reports, Vol. 11, No. 7052 (2021), which is incorporated by reference herein in its entirety.

While preferred embodiments have been shown and described herein, it will be obvious to those skilled in the art that such embodiments are provided by way of example only. Numerous variations, changes, and substitutions will now occur to those skilled in the art without departing from the scope of the disclosure. It should be understood that various alternatives to the embodiments described herein may be employed in practice. Numerous different combinations of embodiments described herein are possible, and such combinations are considered part of the present disclosure. In addition, all features discussed in connection with any one embodiment herein can be readily adapted for use in other embodiments herein. It is intended that the following claims define the scope of the disclosure and that methods and structures within the scope of these claims and their equivalents be covered thereby.

METHODS AND SYSTEMS FOR ANALYZING TARGETABLE PATHOLOGIC PROCESSES IN COVID-19 VIA GENE EXPRESSION ANALYSIS

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