BREAST CANCER PROGRESSION SIGNATURES

Abstract

Methods and compositions for the identification of breast cancer progression signatures are provided. The signature profiles are identified based upon multiple sampling of reference breast tissue samples from independent cases of breast cancer and provide a reliable set of molecular criteria for identification of cells as being in one or more particular stages of breast cancer.

Description

FIELD OF THE INVENTION

The invention relates to the identification and use of gene expression profiles, or patterns, involved in breast cancer progression. The gene expression profiles, whether embodied in nucleic acid expression, protein expression, or other expression formats, are used in the study and/or diagnosis of cells and tissue during breast cancer progression as well as for the study and/or determination of prognosis of a patient. When used for diagnosis or prognosis, the profiles are used to predict the status and/or phenotype of cells and tissues relative to breast cancer and the treatment thereof.

BACKGROUND OF THE INVENTION

Breast cancer is by far the most common cancer among women. Each year, more than 180,000 and 1 million women in the U.S. and worldwide, respectively, are diagnosed with breast cancer. Breast cancer is the leading cause of death for women between ages 50-55, and is the most common non-preventable malignancy in women in the Western Hemisphere. An estimated 2,167,000 women in the United States are currently living with the disease (National Cancer Institute, Surveillance Epidemiology and End Results (NCI SEER) program, Cancer Statistics Review (CSR), www-seer.ims.nci.nih.gov/Publications/CSR1973 (1998)). Based on cancer rates from 1995 through 1997, a report from the National Cancer Institute (NCI) estimates that about 1 in 8 women in the United States (approximately 12.8 percent) will develop breast cancer during her lifetime (NCI's Surveillance, Epidemiology, and End Results Program (SEER) publication SEER Cancer Statistics Review 1973-1997). Breast cancer is the second most common form of cancer, after skin cancer, among women in the United States. An estimated 250,100 new cases of breast cancer are expected to be diagnosed in the United States in 2001. Of these, 192,200 new cases of more advanced (invasive) breast cancer are expected to occur among women (an increase of 5% over last year), 46,400 new cases of early stage (in situ) breast cancer are expected to occur among women (up 9% from last year), and about 1,500 new cases of breast cancer are expected to be diagnosed in men (Cancer Facts & Figures 2001 American Cancer Society). An estimated 40,600 deaths (40,300 women, 400 men) from breast cancer are expected in 2001. Breast cancer ranks second only to lung cancer among causes of cancer deaths in women. Nearly 86% of women who are diagnosed with breast cancer are likely to still be alive five years later, though 24% of them will die of breast cancer after 10 years, and nearly half (47%) will die of breast cancer after 20 years.

Every woman is at risk for breast cancer. Over 70 percent of breast cancers occur in women who have no identifiable risk factors other than age (U.S. General Accounting Office. Breast Cancer, 1971-1991: Prevention, Treatment and Research. GAO/PEMD-92-12; 1991). Only 5 to 10% of breast cancers are linked to a family history of breast cancer (Henderson IC, Breast Cancer. In: Murphy G P, Lawrence W L, Lenhard R E (eds). Clinical Oncology. Atlanta, Ga.: American Cancer Society; 1995:198-219).

Each breast has 15 to 20 sections called lobes. Within each lobe are many smaller lobules. Lobules end in dozens of tiny bulbs that can produce milk. The lobes, lobules, and bulbs are all linked by thin tubes called ducts. These ducts lead to the nipple in the center of a dark area of skin called the areola. Fat surrounds the lobules and ducts. There are no muscles in the breast, but muscles lie under each breast and cover the ribs. Each breast also contains blood vessels and lymph vessels. The lymph vessels carry colorless fluid called lymph, and lead to the lymph nodes. Clusters of lymph nodes are found near the breast in the axilla (under the arm), above the collarbone, and in the chest.

Breast tumors can be either benign or malignant. Benign tumors are not cancerous, they do not spread to other parts of the body, and are not a threat to life. They can usually be removed, and in most cases, do not come back. Malignant tumors are cancerous, and can invade and damage nearby tissues and organs. Malignant tumor cells may metastisize, entering the bloodstream or lymphatic system. When breast cancer cells metastisize outside the breast, they are often found in the lymph nodes under the arm (axillary lymph nodes). If the cancer has reached these nodes, it means that cancer cells may have spread to other lymph nodes or other organs, such as bones, liver, or lungs.

Major and intensive research has been focussed on early detection, treatment and prevention. This has included an emphasis on determining the presence of precancerous or cancerous ductal epithelial cells. These cells are analyzed, for example, for cell morphology, for protein markers, for nucleic acid markers, for chromosomal abnormalities, for biochemical markers, and for other characteristic changes that would signal the presence of cancerous or precancerous cells. This has led to various molecular alterations that have been reported in breast cancer, few of which have been well characterized in human clinical breast specimens. Molecular alterations include presence/absence of estrogen and progesterone steroid receptors, HER-2 expression/amplification (Mark H F, et al. HER-2/neu gene amplification in stages I-IV breast cancer detected by fluorescent in situ hybridization. Genet Med; 1(3):98-103 1999), Ki-67 (an antigen that is present in all stages of the cell cycle except G0 and used as a marker for tumor cell proliferation, and prognostic markers (including oncogenes, tumor suppressor genes, and angiogenesis markers) like p53, p27, Cathepsin D, pS2, multi-drug resistance (MDR) gene, and CD31.

Examination of cells by a trained pathologist has also been used to establish whether ductal epithelial cells are normal (i.e. not precancerous or cancerous or having another noncancerous abnormality), precancerous (i.e. comprising hyperplasia, atypical ductal hyperplasia (ADH)) or cancerous (comprising ductal carcinoma in situ, or DCIS, which includes low grade ductal carcinoma in situ, or LG-DCIS, and high grade ductal carcinoma in situ, or HG-DCIS) or invasive (ductal) carcinoma (IDC). Pathologists may also identify the occurrence of lobular carcinoma in situ (LCIS) or invasive lobular carcinoma (ILC). Breast cancer progression may be viewed as the occurrence of abnormal cells, such as those of ADH, DCIS, IDC, LCIS, and/or ILC, among normal cells.

It remains unclear whether normal cells become hyperplastic (such as ADH) and then progressing on to become malignant (DCIS, IDC, LCIS, and/or ILC) or whether normal cells are able to directly become malignant without transitioning through a hyperplastic stage. It has been observed, however, that the presence of ADH indicates a higher likelihood of developing a malignancy. This has resulting in treatment of patients with ADH to begin treatment with an antineoplastic/antitumor agent such as tamoxifen. This is in contrast to the treatment of patients with malignant breast cancer which usually includes surgical removal.

The rational development of preventive, diagnostic and therapeutic strategies for women at risk for breast cancer would be aided by a molecular map of the tumorigenesis process. Relatively little is known of the molecular events that mediate the transition of normal breast cells to the various stages of breast cancer progression. In particular, there is a significant paucity of information regarding the genetic changes that are associated with the earliest stages of human breast cancer, which include the transition of normal breast cells to atypical hyperplastic and/or pre-invasive malignant cells (carcinoma in situ).

Molecular means of identifying the differences between normal, non-cancerous cells and cancerous cells (in general) have also been the focus of intense study. The use of cDNA libraries to analyze differences in gene expression patterns in normal versus tumorigenic cells has been described (U.S. Pat. No. 4,981,783). DeRisi et al. (1996) describe the analysis of gene expression patterns between two cell lines: UACC-903, which is a tumorigenic human melanoma cell line, and UACC-903(+6), which is a chromosome 6 suppressed non-tumorigenic form of UACC-903. Labeled cDNA probes made from mRNA from these cell lines were applied to DNA microarrays containing 870 different cDNAs and controls. Genes that were preferentially expressed in one of the two cell lines were identified.

Golub et al. (1999) describe the use of gene expression monitoring as means to cancer class discovery and class prediction between acute myeloid leukemia (AML) and acute lymphoblastic leukemia (ALL). Their approach to class predictors used a neighborhood analysis followed by cross-validation of the validity of the predictors by withholding one sample and building a predictor based only on the remaining samples. This predictor is then used to predict the class of the withheld sample. They also used cluster analysis to identify new classes (or subtypes) within the AML and ALL.

Gene expression patterns in human breast cancers have been described by Perou et al. (1999), who studied gene expression between cultured human mammary epithelia cells (HMEC) and breast tissue samples by use of microarrays comprising about 5000 genes. They used a clustering algorithm to identify patterns of expression in HMEC and tissue samples. Perou et al. (2000) describe the use of clustered gene expression profiles to classify subtypes of human breast tumors. Hedenfalk et al. describe gene expression profiles in BRCA1 mutation positive, BRCA2 mutation positive, and sporadic tumors. Sgroi et al. also analyzed gene expression of normal and breast cancer cells from a single patient. Using gene expression patterns to distinguish breast tumor subclasses and predict clinical implications is described by Sorlie et al. and West et al.

All of the above described approaches, however, utilize heterogeneous populations of cells found in culture or in a biopsy to obtain information on gene expression patterns. The use of such populations may result in the inclusion or exclusion of multiple genes from the patterns. For this and the lack of statistical robustness reasons, the gene expression patterns observed by the above described approaches provide little confidence that the differences in gene expression may be meaningfully associated with the stages of breast cancer.

SUMMARY OF THE INVENTION

The present invention relates to the identification and use of gene expression patterns (or profiles or “signatures”) which are correlated with (and thus able to discriminate between) cells in various stages of breast cancer. Broadly defined, these stages are non-malignant versus malignant, but may also be viewed as normal versus atypical (optionally including reactive and pre-neoplastic) versus cancerous. Another definition of the stages is normal versus precancerous (e.g. atypical ductal hyperplasia (ADH) or atypical lobular hyperplasia (ALH)) versus cancerous (e.g. carcinoma in situ such as DCIS and/or LCIS) versus invasive (e.g. carcinomas such as IDC and/or ILC). DCIS may be further viewed as low grade versus high grade or grade I through grade III.

The gene expression patterns comprise one or more than one gene capable of discriminating between various stages of breast cancer with significant accuracy. The gene(s) are identified as correlated with various stages of breast cancer such that the levels of their expression are relevant to a determination of the stage of breast cancer of a cell. Thus in one aspect, the invention provides a method to determine the stage of breast cancer of a subject afflicted with, or suspected of having, breast cancer by assaying a cell containing sample from said subject for expression of one or more than one gene disclosed herein as correlated with one or more stages of breast cancer.

Gene expression patterns of the invention are identified by analysis of gene expression in multiple samples of each stage to be studied. The overall gene expression profile of each sample is obtained by analyzing the expressed or unexpressed state of genes in each stage relative to each other (one gene to another across all genes). This overall profile is then analyzed to identify genes that are positively, or negatively, correlated, with a stage of breast cancer relative to other genes. An expression profile of a subset of human genes may then be identified by the methods of the present invention as correlated with breast cancer. The use of multiple samples increases the confidence which which a gene may be believed to be correlated with a particular stage. Without sufficient confidence, it remains unpredictable whether a particular gene is actually correlated with a stage of breast cancer and also unpredictable whether a particular gene may be successfully used to identify the stage of an unknown breast cancer cell sample.

A profile of genes that are highly correlated with one stage relative to another may be used to assay an sample from a subject afflicted with, or suspected of having, breast cancer to identify the stage of breast cancer to which the sample belongs. Such an assay may be used as part of a method to determine the therapeutic treatment for said subject based upon the stage(s) of breast cancer identified.

The correlated genes may be used singly with significant accuracy or in combination to increase the ability to accurately discriminate between various stages of breast cancer. The present invention thus provides means for correlating a molecular expression phenotype with a physiological (cellular) stage or state. This correlation provides a way to molecularly diagnose and/or monitor a cell's status in comparison to different cancerous versus non-cancerous phenotypes as disclosed herein. Additional uses of the correlated gene(s) are in the classification of cells and tissues; determination of diagnosis and/or prognosis; and determination and/or alteration of therapy.

The ability to discriminate is conferred by the identification of expression of the individual genes as relevant and not by the form of the assay used to determine the actual level of expression. An assay may utilize any identifying feature of an identified individual gene as disclosed herein as long as the assay reflects, quantitatively or qualitatively, expression of the gene. Identifying features include, but are not limited to, unique nucleic acid sequences used to encode (DNA), or express (RNA), said gene or epitopes specific to, or activities of, a protein encoded by said gene. All that is required is the identity of the gene(s) necessary to discriminate between stages of breast cancer and an appropriate cell containing sample for use in an expression assay.

In one aspect, the invention provides for the identification of the gene expression patterns by analyzing global, or near global, gene expression from single cells or homogenous cell populations which have been dissected away from, or otherwise isolated or purified from, contaminating cells beyond that possible by a simple biopsy. Because the expression of numerous genes fluctuate between cells from different patients as well as between cells from the same patient sample, multiple individual gene expression patterns are used as reference data to generate models which in turn permit the identification of individual gene(s) that are most highly correlated with particular breast cancer stages and/or have the best the ability to discriminate cells of one stage from another.

In another aspect, the invention provides physical and methodological means for detecting the expression of gene(s) identified by the models generated by individual expression patterns. These means may be directed to assaying one or more aspect of the DNA template(s) underlying the expression of the gene(s), of the RNA used as an intermediate to express the gene(s), or of the proteinaceous product expressed by the gene(s).

In a further aspect, the gene(s) identified by a model as capable of discriminating between breast cancer stages may be used to identify the cellular state of an unknown sample of cell(s) from the breast. Preferably, the sample is isolated via non-invasive means. The expression of said gene(s) in said unknown sample may be determined and compared to the expression of said gene(s) in reference data of gene expression patterns from the various stages of breast cancer. Optionally, the comparison to reference samples may be by comparison to the model(s) constructed based on the reference samples.

One advantage provided by the present invention is that contaminating, non-breast cells (such as infiltrating lymphocytes or other immune system cells) are not present to possibly affect the genes identified or the subsequent analysis of gene expression to identify the status of suspected breast cancer cells. Such contamination is present where a biopsy is used to generate gene expression profiles.

While the present invention has been described mainly in the context of human breast cancer, it may be practiced in the context of breast cancer of any animal known to be potentially afflicted by breast cancer. Preferred animals for the application of the present invention are mammals, particularly those important to agricultural applications (such as, but not limited to, cattle, sheep, horses, and other “farm animals”) and for human companionship (such as, but not limited to, dogs and cats).

BRIEF DESCRIPTION OF THE FIGURES

FIG. 1 is a schematic representing a data matrix of a pair-wise comparison between Grade I and Grade III DCIS among 16 samples (across the top) and a large number of genes identified by “CloneID”) along the left hand side.

FIG. 2 is a table showing the actual weight data corresponding to Example II, where the data from ten genes (by CloneID number vertically) are compared to DCIS and ADH samples (across the top). Some data in the table has been vertically presented to permit the table to be displayed on a single sheet. The use of “−” with data in the table reflects genes that are more highly expressed in ADH relative to DCIS. The absence of “−”reflects genes that are more highly expressed in DCIS relative to ADH.

FIG. 3 is a table showing the actual weight data corresponding to Example VII, where the data from over 300 genes (by CloneID number vertically) are compared to DCIS and ADH samples (across the top). Some data in the table has been vertically presented solely for display purposes. The use of “−” with data in the table reflects genes that are more highly expressed in ADH relative to DCIS. The absence of “−” reflects genes that are more highly expressed in DCIS relative to ADH.

FIG. 4 is a table showing the actual weight data corresponding to Example VIII, where the data from over 300 genes (by CloneID number vertically) are compared to samples (across the top) from two grades of DCIS. The use of “−” with data in the table reflects genes that are more highly expressed in grade I relative to grade III. The absence of “−” reflects genes that are more highly expressed in grade III relative to grade I.

DETAILED DESCRIPTION OF THE SPECIFIC EMBODIMENTS

Definitions of Terms as used Herein:

A gene expression “pattern” or “profile” or “signature” refers to the relative expression of a gene between two or more stages of breast cancer which is correlated with being able to distinguish between said stages.

A “gene” is a polynucleotide that encodes a discrete product, whether RNA or proteinaceous in nature. It is appreciated that more than one polynucleotide may be capable of encoding a discrete product. The term includes alleles and polymorphisms of a gene that encodes the same product, or a functionally associated (including gain, loss, or modulation of function) analog thereof, based upon chromosomal location and ability to recombine during normal mitosis.

A “stage” or “stages” (or equivalents thereof) of breast cancer refer to a physiologic state of a breast cell as defined by known cytological or histological (including immunohistology, histochemistry, and immunohistochemistry) procedures and are readily known to skilled in the art. Non-limiting examples include normal versus abnormal, non-cancerous versus cancerous, the different stages described herein (e.g. hyperplastic, carcinoma, and invasive), and grades within different stages (e.g. grades I, II, or III or the equivalents thereof within cancerous stages).

The terms “correlate” or “correlation” or equivalents thereof refer to an association between expression of one or more genes and a physiologic state of a breast cell to the exclusion of one or more other stages and/or identified by use of the methods as described herein. A gene may be expressed at higher or lower levels and still be correlated with one or more breast cancer stages.

A “polynucleotide” is a polymeric form of nucleotides of any length, either ribonucleotides or deoxyribonucleotides. This term refers only to the primary structure of the molecule. Thus, this term includes double- and single-stranded DNA and RNA. It also includes known types of modifications including labels known in the art, methylation, “caps”, substitution of one or more of the naturally occurring nucleotides with an analog, and internucleotide modifications such as uncharged linkages (e.g., phosphorothioates, phosphorodithioates, etc.), as well as unmodified forms of the polynucleotide.

The term “amplify” is used in the broad sense to mean creating an amplification product can be made enzymatically with DNA or RNA polymerases. “Amplification,” as used herein, generally refers to the process of producing multiple copies of a desired sequence, particularly those of a sample. “Multiple copies” mean at least 2 copies. A “copy” does not necessarily mean perfect sequence complementarity or identity to the template sequence.

By corresponding is meant that a nucleic acid molecule shares a substantial amount of sequence identity with another nucleic acid molecule. Substantial amount means at least 95%, usually at least 98% and more usually at least 99%, and sequence identity is determined using the BLAST algorithm, as described in Altschul et al. (1990), J. Mol. Biol. 215:403-410 (using the published default setting, i.e. parameters w=4, t=17). Methods for amplifying mRNA are generally known in the art, and include reverse transcription PCR (RT-PCR) and those described in U.S. Patent Application (number to be assigned) entitled “Nucleic Acid Amplification” filed on Oct. 25, 2001 as attorney docket number 485772002900 as well as U.S. Provisional Patent Application 60/298,847 (filed Jun. 15, 2001) and 60/257,801 (filed Dec. 22, 2000), all of which are hereby incorporated by reference in their entireties as if fully set forth. Alternatively, RNA may be directly labeled as the corresponding cDNA by methods known in the art.

A “microarray” is a linear or two-dimensional array of preferably discrete regions, each having a defined area, formed on the surface of a solid support such as, but not limited to, glass, plastic, or synthetic membrane. The density of the discrete regions on a microarray is determined by the total numbers of immobilized polynucleotides to be detected on the surface of a single solid phase support, preferably at least about 50/cm², more preferably at least about 100/cm², even more preferably at least about 500/cm², but preferably below about 1,000/cm². Preferably, the arrays contain less than about 500, about 1000, about 1500, about 2000, about 2500, or about 3000 immobilized polynucleotides in total. As used herein, a DNA microarray is an array of oligonucleotides or polynucleotides placed on a chip or other surfaces used to hybridize to amplified or cloned polynucleotides from a sample. Since the position of each particular group of primers in the array is known, the identities of a sample polynucleotides can be determined based on their binding to a particular position in the microarray.

Because the invention relies upon the identification of genes that are over- or under-expressed, one embodiment of the invention involves determining expression by hybridization of mRNA, or an amplified or cloned version thereof, of a sample cell to a polynucleotide that is unique to a particular gene sequence. Preferred polynucleotides of this type contain at least about 20, at least about 22, at least about 24, at least about 26, at least about 28, at least about 30, or at least about 32 consecutive basepairs of a gene sequence that is not found in other gene sequences. The term “about” as used in the previous sentence refers to an increase or decrease of 1 from the stated numerical value. Even more preferred are polynucleotides of at least about 50, at least about 100, and at least about 150 basepairs of a gene sequence that is not found in other gene sequences. The term “about” as used in the preceding sentence refers to an increase or decrease of 10% from the stated numerical value.

Alternatively, and in another embodiment of the invention, gene expression may be determined by analysis of expressed protein in a cell sample of interest by use of one or more antibodies specific for one or more epitopes of individual gene products (proteins) in said cell sample. Such antibodies are preferably labeled to permit their easy detection after binding to the gene product.

The term “label” refers to a composition capable of producing a detectable signal indicative of the presence of the labeled molecule. Suitable labels include radioisotopes, nucleotide chromophores, enzymes, substrates, fluorescent molecules, chemiluminescent moieties, magnetic particles, bioluminescent moieties, and the like. As such, a label is any composition detectable by spectroscopic, photochemical, biochemical, immunochemical, electrical, optical or chemical means.

The term “support” refers to conventional supports such as beads, particles, dipsticks, fibers, filters, membranes and silane or silicate supports such as glass slides.

As used herein, a “breast tissue sample” or “breast cell sample” refers to a sample of breast tissue or fluid isolated from an individual suspected of being afflicted with, or at risk of developing, breast cancer. Such samples are primary isolates (in contrast to cultured cells) and may be collected by any non-invasive means, including, but not limited to, ductal lavage, fine needle aspiration, needle biopsy, the devices and methods described in U.S. Pat. No. 6,328,709, or any other suitable means recognized in the art. Alternatively, the “sample” may be collected by an invasive method, including, but not limited to, surgical biopsy.

“Expression” and “gene expression” include transcription and/or translation of nucleic acid material.

As used herein, the term “comprising” and its cognates are used in their inclusive sense; that is, equivalent to the term “including” and its corresponding cognates.

Conditions that “allow” an event to occur or conditions that are “suitable” for an event to occur, such as hybridization, strand extension, and the like, or “suitable” conditions are conditions that do not prevent such events from occurring. Thus, these conditions permit, enhance, facilitate, and/or are conducive to the event. Such conditions, known in the art and described herein, depend upon, for example, the nature of the nucleotide sequence, temperature, and buffer conditions. These conditions also depend on what event is desired, such as hybridization, cleavage, strand extension or transcription.

Sequence “mutation,” as used herein, refers to any sequence alteration in the sequence of a gene disclosed herein interest in comparison to a reference sequence. A sequence mutation includes single nucleotide changes, or alterations of more than one nucleotide in a sequence, due to mechanisms such as substitution, deletion or insertion. Single nucleotide polymorphism (SNP) is also a sequence mutation as used herein. Because the present invention is based on the relative level of gene expression, mutations in non-coding regions of genes as disclosed herein may also be assayed in the practice of the invention.

“Detection” includes any means of detecting, including direct and indirect detection of gene expression and changes therein. For example, “detectably less” products may be observed directly or indirectly, and the term indicates any reduction (including the absence of detectable signal). Similarly, “detectably more” product means any increase, whether observed directly or indirectly.

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

Specific Embodiments

The present invention relates to the identification and use of gene expression patterns (or profiles or “signatures”) which discriminate between (or are correlated with) cells in various stages of breast cancer. Such patterns may be determined by the methods of the invention by use of a number of reference cell or tissue samples, such as those reviewed by a pathologist of ordinary skill in the pathology of breast cancer, which reflect various stages of breast cancer. Because the overall gene expression profile differs from person to person, cancer to cancer, and cancer cell to cancer cell, correlations between certain cell states and genes expressed or underexpressed may be made as disclosed herein to identify genes that are capable of discriminating between different breast cancer states.

The present invention may be practiced with any number of genes believed, or likely to be, differentially expressed in breast cancer cells. In Example I below, approximately 12,000 genes were used to identify hundreds of genes capable of discriminating between various stages of breast cancer as shown in Examples 2-9. The identification may be made by using expression profiles of various homogenous normal and breast cancer cell populations, which were isolated by microdissection, such as, but not limited to, laser capture microdissection (LCM) of 100-1000 cells. Each gene of the expression profile may be assigned weights based on its ability to discriminate between two or more stages of breast cancer (see Example I). The magnitude of each assigned weight indicates the extent of difference in expression between the two groups and is an approximation of the ability of expression of the gene to discriminate between the two groups (and thus stages). The magnitude of each assigned weight also approximates the extent of correlation between expression of individual gene(s) and particular breast cancer stages.

It should be noted that merely high levels of expression in cells from a particular stage or stages does not necessarily mean that a gene will be identified as having a high absolute weight value.

Genes with top ranking weights (in absolute terms) may be used to generate models of gene expressions that would maximally discriminate between the two groups. Alternatively, genes with top ranking weights (in absolute terms) may be used in combination with genes with lower weights without signficant loss of ability to discriminate between groups. Such models may be generated by any appropriate means recognized in the art, including, but not limited to, cluster analysis, supported vector machines, neural networks or other algorithm known in the art. The models are capable of predicting the classification of a unknown sample based upon the expression of the genes used for discrimination in the models. “Leave one out” cross-validation may be used to test the performance of various models and to help identify weights (genes) that are uninformative or detrimental to the predictive ability of the models. Cross-validation may also be used to identify genes that enhance the predictive ability of the models.

The gene(s) identified as correlated with particular breast cancer stages by the above models provide the ability to focus gene expression analysis to only those genes that contribute to the ability to identify a cell as being in a particular stage of breast cancer relative to another stage or stages. The expression of other genes in a breast cancer cell would be relatively unable to provide information concerning, and thus assist in the discrimination of, different stages of breast cancer. For example, the alpha subunit of human topoisomerase II (identified by CloneID 825470) has been found to be useful in discriminations between normal and atypical cells (ADH and DCIS and IDC and LCIS), between normal and ADH cells compared to DCIS and IDC cells, between normal and DCIS cells, between ADH and DCIS cells, between grade I and grade III DCIS cells, and between grade I and grade III IDC cells but not between normal and ADH cells (see Examples II to IX below). Thus expression of this topoisomerase II subunit would be utilized in models to discriminate between the above listed stages but not for discerning normal from ADH cells. This type of analysis is readily incorporated into algorithms used to generate models with reference gene expression data.

As will be appreciated by those skilled in the art, the models are highly useful with even a small set of reference gene expression data and can become increasingly accurate with the inclusion of more reference data although the incremental increase in accuracy will likely diminish with each additional datum. The preparation of additional reference gene expression data using genes identified and disclosed herein for discriminating between different stages of breast cancer is routine and may be readily performed by the skilled artisan to permit the generation of models as described above to predict the status of an unknown sample based upon the expression levels of those genes.

To determine the expression levels of genes in the practice of the present invention, any method known in the art may be utilized. In one preferred embodiment of the invention, expression based on detection of RNA which hybridizes to the genes identified and disclosed herein is used. This is readily performed by any RNA detection or amplification+detection method known or recognized as equivalent in the art such as, but not limited to, reverse transcription-PCR, the methods disclosed in U.S. Patent Application (number to be assigned) entitled “Nucleic Acid Amplification” filed on Oct. 25, 2001 as attorney docket number 485772002900 as well as U.S. Provisional Patent Applications 60/298,847 (filed Jun. 15, 2001) and 60/257,801 (filed Dec. 22, 2000), and methods to detect the presence, or absence, of RNA stabilizing or destabilizing sequences.

Alternatively, expression based on detection of DNA status may be used. Detection of the DNA of an indentified gene as methylated or deleted may be used for genes that have decreased expression in correlation with a particular breast cancer stage. This may be readily performed by PCR based methods known in the art. Conversely, detection of the DNA of an indentified gene as amplified may be used for genes that have increased expression in correlation with a particular breast cancer stage. This may be readily performed by PCR based, fluorescent in situ hybridization (FISH) and chromosome in situ hybridization (CISH) methods known in the art.

Expression based on detection of a presence, increase, or decrease in protein levels or activity may also be used. Detection may be performed by any immunohistochemistry (IHC) based, blood based (especially for secreted proteins), antibody (including autoantibodies against the protein) based, ex foliate cell (from the cancer) based, mass spectroscopy based, and image (including used of labeled ligand) based method known in the art and recognized as appropriate for the detection of the protein. Antibody and image based methods are additionally useful for the localization of tumors after determination of cancer by use of cells obtained by a non-invasive procedure (such as ductal lavage or fine needle aspiration), where the source of the cancerous cells is not known. A labeled antibody or ligand may be used to localize the carcinoma(s) within a patient.

A preferred embodiment using a nucleic acid based assay to determine expression is by immobilization of one or more of the genes identified herein on a solid support, including, but not limited to, a solid substrate as an array or to beads or bead based technology as known in the art. Alternatively, solution based expression assays known in the art may also be used. The immobilized gene(s) may be in the form of polynucleotides that are unique or otherwise specific to the gene(s) such that the polynucleotide would be capable of hybridizing to a DNA or RNA corresponding to the gene(s). These polynucleotides may be the full length of the gene(s) or be short sequences of the genes that are optionally minimally interrupted (such as by mismatches or inserted non-complementary basespairs) such that hybridization with a DNA or RNA corresponding to the gene(s) is not affected.

The immobilized gene(s) may be used to determine the state of nucleic acid samples prepared from sample breast cell(s) for which the pre-cancer or cancer status is not known or for confirmation of a status that is already assigned to the sample breast cell(s). Without limiting the invention, such a cell may be from a patient suspected of being afflicted with, or at risk of developing, breast cancer. The immobilized polynucleotide(s) need only be sufficient to specifically hybridize to the corresponding nucleic acid molecules derived from the sample. While even a single correlated gene sequence may to able to provide adequate accuracy in discriminating between two breast cancer cell stages, two or more, three or more, four or more, five or more, six or more, seven or more, eight or more, nine or more, ten or more, or eleven or more of the genes identified herein may be used as a subset capable of discriminating may be used in combination to increase the accuracy of the method. The invention specifically contemplates the selection of more than one, two or more, three or more, four or more, five or more, six or more, seven or more, eight or more, nine or more, ten or more, or eleven or more of the genes disclosed in the tables and figures herein for use as a subset in the identification of whether an unknown or suspicious breast cancer sample is normal or is in one or more stages of breast cancer. Optionally, the genes used will not include CloneID 809507, which is also known as GenBank accession number AA454563, described as an EST with high similarity to CD63 but of unknown function.

In embodiments where only one or a few genes are to be analyzed, the nucleic acid derived from the sample breast cancer cell(s) may be preferentially amplified by use of appropriate primers such that only the genes to be analyzed are amplified to reduce contaminating background signals from other genes expressed in the breast cell. Alternatively, and where multiple genes are to be analyzed or where very few cells (or one cell) is used, the nucleic acid from the sample may be globally amplified before hybridization to the immobilized polynucleotides. Of course RNA, or the cDNA counterpart thereof may be directly labeled and used, without amplification, by methods known in the art.

The above assay embodiments may be used in a number of different ways to identify or detect the breast cancer stage, if any, of a breast cancer cell sample from a patient. In many cases, this would reflect a secondary screen for the patient, who may have already undergone mammography or physical exam as a primary screen. If positive, the subsequent needle biopsy, ductal lavage, fine needle aspiration, or other analogous methods may provide the sample for use in the above assay embodiments. The present invention is particularly useful in combination with non-invasive protocols, such as ductal lavage or fine needle aspiration, to prepare a breast cell sample. The current analysis of ductal lavage samples is by cytological examination by a trained pathologist who classifies the samples in terms that are at least partly subjective: unsatisfactory (too few cells), benign (including fibrocystic change), atypical (or mild atypia), suspicious (or marked atypia), or malignant.

The present invention provides a more objective set of criteria, in the form of gene expression profiles of a discrete set of genes, to discriminate (or delineate) between meaningful stages (or classes) of breast cancer cells. In particularly preferred embodiments of the invention, the assays are used to discriminate between ADH and DCIS or otherwise malignant cells, which is a critical determination for decisions concerning subsequent treatment and therapy for the patient. Another particularly preferred determination is between the three grades (I, II, III) of carcinomas in situ as well as the discrimination between grade III carcinomas in situ and invasive carcinomas. Other pairwise comparisons that are provided by the invention include, but are not limited to, normal versus ADH, normal versus carcinoma in situ, normal versus invasive, normal versus cancerous (i.e. carcinoma present), ADH versus cancerous, and carcinoma in situ versus invasive. With the use of alternative algorithms, such as neural networks, comparisons that discriminate between multiple (more than pairwise) classes may also be performed. It is believed by the inventors that the present invention is the first example of objective, molecular criteria for making these discriminations.

In one embodiment of the invention, the isolation and analysis of a breast cancer cell sample may be performed as follows:

• • (1) Ductal lavage or other non-invasive procedure is performed on a patient to obtain a sample.
  • (2) Sample is prepared and coated onto a microscope slide. Note that ductal lavage results in clusters of cells that are cytologically examined as stated above.
  • (3) Pathologist or image analysis software scans the sample for the presence of atypical cells.
  • (4) If atypical cells are observed, those cells are harvested (e.g. by microdissection such as LCM).
  • (5) RNA is extracted from the harvested cells.
  • (6) RNA is purified, amplified, and labeled.
  • (7) Labeled nucleic acid is contacted with a microarray containing polynucleotides of the genes identified herein as correlated to discriminations between two or more stages of breast cancer under hybridization conditions, then processed and scanned to obtain a pattern of intensities of each spot (relative to a control for general gene expression in cells) which determine the level of expression of the gene(s) in the cells.
  • (8) The pattern of intensities is analyzed by comparison to the expression patterns of the genes in known samples of normal and breast cancer cells (relative to the same control).

A specific example of the above method would be performing ductal lavage following a primary screen, observing and collecting atypical cells for analysis. The comparison to known expression patterns, such as that made possible by a model generated by an algorithm (such as, but not limited to nearest neighbor type analysis, SVM, or neural networks) with reference gene expression data for the different breast cancer stages, identifies the cells as being most likely ADH.

Alternatively, the sample may permit the collection of both normal and atypical cells for analysis. The gene expression patterns for each of these two samples will be compared to each other as well as the model and the normal versus individual abnormal comparisons therein based upon the reference data set. This approach can be significantly more powerful that the atypical cells only approach because it utilizes significantly more information from the normal cells and the differences between normal and atypical cells (in both the sample and reference data sets) to determine the status of the atypical cells from the sample.

By appropriate selection of the genes used in the analysis, identification of the relative amounts of atypical cells may also be possible, although in most clinical settings, the identification of the highest grade of breast cancer with confidence makes identification of lower grades less important. Stated differently, the identification of invasive cancer determines the clinical situation regardless of the presence of carcinoma in situ or hyperplastic cells, or the identification of carcinoma in situ makes determines the clinical situation regardless of the presence of hyperplastic cells.

With use of the present invention, skilled physicians may prescribe treatments based on non-invasive samples that they would have prescribed for a patient which had previously received a diagnosis via a solid tissue biopsy.

The above discussion is also applicable where a palpable lesion is detected followed by fine needle aspiration or needle biopsy of cells from the breast. The cells are plated and reviewed by a pathologist or automated imaging system which selects cells for analysis as described above. This again provides a means of linking visual to molecular cytology and provides a less subjective means of identifying the physiological state of breast cancer cells without the need for invasive solid tissue biopsies.

The present invention may also be used, however, with solid tissue biopsies. For example, a solid biopsy may be collected and prepared for visualization followed by determination of expression of one or more genes identified herein to determine the stage of breast cancer, if any. One preferred means is by use of in situ hybridization with polynucleotide or protein identifying probe(s) for assaying expression of said gene(s).

In an alternative method, the solid tissue biopsy may be used to extract molecules followed by analysis for expression of one or more gene(s). This provides the possibility of leaving out the need for visualization and collection of only those cells suspected of being atypical. This method may of course be modified such that only cells suspected of being atypical are collected and used to extract molecules for analysis. This would require visualization and selection as an prerequisite to gene expression analysis.

In a further modification of the above, both normal cells and cells suspected of being atypical are collected and used to extract molecules for analysis of gene expression. The approach, benefits and results are as described above using non-invasive sampling.

In a further alternative to all of the above, the gene(s) identified herein may be used as part of a simple PCR or array based assay simply to determine the presence of atypical cells in a sample from a non-invasive sampling procedure. This is simple to perform and utilizes genes identified to be the best discriminators of normal versus abnormal cells without the need for any cytological examination. If no atypical cells are identified, no cytological examination is necessary. If atypical cells are identified, cytological examination follows, and a more comprehensive analysis, as described above, may follow.

The genes identified herein may be used to generate a model capable of predicting the breast cancer stage (if any) of an unknown breast cell sample based on the expression of the identified genes in the sample. Such a model may be generated by any of the algorithms described herein or otherwise known in the art as well as those recognized as equivalent in the art using gene(s) (and subsets thereof) disclosed herein for the identification of whether an unknown or suspicious breast cancer sample is normal or is in one or more stages of breast cancer. The model provides a means for comparing expression profiles of gene(s) of the subset from the sample against the profiles of reference data used to build the model. The model can compare the sample profile against each of the reference profiles or against model defining delineations made based upon the reference profiles. Additionally, relative values from the sample profile may be used in comparison with the model or reference profiles.

In a preferred embodiment of the invention, breast cell samples identified as normal and abnormal (atypical) from the same subject may be analyzed for their expression profiles of the genes used to generate the model. This provides an advantageous means of identifying the stage of the abnormal sample based on relative differences from the expression profile of the normal sample. These differences can then be used in comparison to differences between normal and individual abnormal reference data which was also used to generate the model.

The detection of gene expression from the samples may be by use of a single microarray able to assay gene expression from all pairwise comparisons disclosed herein for convenience and accuracy.

Other uses of the present invention include providing the ability to identify breast cancer cell samples as being those of a particular stage of cancer for further research or study. This provides a particular advantage in many contexts requiring the identification of breast cancer stage based on objective genetic or molecular criteria rather than cytological observation. It is of particular utility to distinguish different grades of a particular breast cancer stage for further study, research or characterization because no objective criteria for such delineation was previously available.

The materials for use in the methods of the present invention are ideally suited for preparation of kits produced in accordance with well known procedures. The invention thus provides kits comprising agents for the detection of expression of the disclosed genes for identifying breast cancer stage. Such kits optionally comprising the agent with an identifying description or label or instructions relating to their use in the methods of the present invention, is provided. Such a kit may comprise containers, each with one or more of the various reagents (typically in concentrated form) utilized in the methods, including, for example, pre-fabricated microarrays, buffers, the appropriate nucleotide triphosphates (e.g., dATP, dCTP, dGTP and dTTP; or rATP, rCTP, rGTP and UTP), reverse transcriptase, DNA polymerase, RNA polymerase, and one or more primer complexes of the present invention (e.g., appropriate length poly(T) or random primers linked to a promoter reactive with the RNA polymerase). A set of instructions will also typically be included.

The methods provided by the present invention may also be automated in whole or in part. All aspects of the present invention may also be practiced such that they consist essentially of a subset of the disclosed genes to the exclusion of material irrelevant to the identification of breast cancer stages in a cell containing sample.

Having now generally described the invention, the same will be more readily understood through reference to the following examples which are provided by way of illustration, and are not intended to be limiting of the present invention, unless specified.

EXAMPLES

Example I

Materials and Methods

Clinical Specimens

Clinical biopsies from 30 patients were obtained from the Massachusetts General Hospital with Institutional Review Board approval. The tissue from one of the patients was not associated with breast cancer of any kind since it was from a breast reduction procedure. Pathological and histological information for the biopsies were also obtained. Three independent captures of about 1000 breast epithelial cells of one or more of the four different disease stages (normal, N; atypical ductal hyperplasia, ADH; ductal carcinoma in situ, DCIS; invasive ductal carcinoma, IDC) were procured from each biopsy using Laser Capture Microdissection (LCM, Arcturus Engineering). Three independent captures of LCIS (lobular carcinoma in situ) in one biopsy were also made. Total RNA was extracted from the captured (procured) cells and amplified with a T7-promoter based RNA amplification protocol. The human universal reference RNA (Stratagene, La Jolla), was similarly amplified and used as the reference channel in a two-color microarray hybridization.

Microarrays

To maximize coverage of breast cancer-related genes on the microarrays used, 11,435 cDNA clones from the IMAGE consortium (Research Genetics) were obtained. These clones were selected based on literature knowledge (such as, but not limited to, preferential expression in cancer versus normal cells) and after mining (such as, but not limited to, preferential expression in breast tissues) gene expression information in the expressed sequence tags (EST) databases and the Serial Analysis of Gene Expression (SAGE) data sets available from the National Center for Biotechnology Information (NCBI, http://www/ncbi.nlm.nih.gov).

Microarray Data Processing

Microarray images were analyzed with ImaGene (BioDiscovery) to find and quantitate each spot on the microarray. Spots flagged by ImaGene as poor spots using standard criteria used with the software for the standardization of signals were excluded from further analysis. Raw Cy5 (sample channel) and Cy3 (reference channel) intensities and associated local background estimates for each spot were then examined. The signal/noise ratio, defined as the spot intensity over background intensity, was used as the second criteria for spot exclusion; spots with signal/noise ratio<3.0 in the reference channel or <1.5 in the sample channel were excluded from further analysis. Background-subtracted intensities across the chip were normalized to the 75th-percentile of the spot intensity distribution on the entire chip (alternative normalizations to the mean, median or other point may also be used as known in the art). Cy5/Cy3 ratios of each spot for each cellular state were averaged across each of six measurements (3 LCM captures×2 chips/capture=6 chips); outliers among the 6 data points were removed before taking the average. The resulting data were formatted as a data matrix (samples along the top horizontal axis and gene identity along the vertical axis) for data mining (see FIG. 1 with data).

Microarray Data Analysis

Before further analysis, each value in a row (gene) of the gene expression matrix was divided by the median value for the row, and the resulting matrix log-transformed. Normalized, median-centered, and log-transformed, gene expression data matrix was loaded into GeneMaths software (Applied-Maths, Belgium). Clustering and discriminant analysis were performed to identify sets of genes associated with different cellular states. For each pair-wise comparison between two breast cancer stages, samples are assigned to either the positive group or negative group, and genes were sorted by their discriminatory weights. The absolute value of the weight of a gene indicates the extent of difference in expression between the two groups; the positively signed genes are expressed higher in one group and the negatively singed genes are expressed higher in the other group.

The utility of the top-ranking genes as a diagnostic test was evaluated using the support vector machines (SVMs) algorithm (see Yeang, C. H., S. Ramaswamy, et al. (2001). “Molecular classification of multiple tumor types.” Bioinformatics 17 Suppl 1: S316-22; Xiong, M., X. Fang, et al. (2001). “Biomarker identification by feature wrappers.” Genome Res 11 (11): 1878-87 this one used linear discriminate analysis, logistic regression and svm; Furey, T. S., N. Cristianini, et al. (2000). “Support vector machine classification and validation of cancer tissue samples using microarray expression data.” Bioinformatics 16(10): 906-14; and Brown, M. P., W. N. Grundy, et al. (2000). “Knowledge-based analysis of microarray gene expression data by using support vector machines.” Proc Natl Acad Sci USA 97(1): 262-7, who state “SVMs are considered a supervised computer learning method because they exploit prior knowledge of gene function to identify unknown genes of similar function from expression data. SVMs avoid several problems associated with unsupervised clustering methods, such as hierarchical clustering and self-organizing maps.”) Other algorithms, such as, but not limited to, linear discriminate analysis, logistic regression, cluster analysis, K-th nearest neighbor, or neural nets.

The support vector machines algorithm finds the maximal margin hyperplane that separate the two groups under comparison. The method of leave-one-out cross-validation was used to test the performance of a given set of genes; one sample was taken in turn out of the training set and a model is built using the rest of the training set, which is in then applied to classify the left-out sample. The accuracy of the genes in the cross-validation procedure is the percentage of correct classifications over the total number of the training samples.

Example II

10 Genes for Discriminating Between ADH and DCIS

Based upon the methodology of Example I above, 10 genes identified as capable of discriminating between ADH and DCIS are listed in Table 1 below along with a brief description of the gene. CloneID as used in the context of the present invention refers to the IMAGE Consortium clone ID number of each gene, the sequences of which are hereby incorporated by reference in their entireties as they are available from the Consortium at http://image.llnl.gov/ as accessed on the filing date of the present application. Weight refers to the absolute value indicating the extent of difference in expression between ADH and DCIS where the positively signed values are expressed higher in ADH and the negatively signed values are expressed higher in DCIS; Chromosome Location refers to the human chromosome to which the gene has been assigned, and Description provides a brief identifier of what the gene encodes. The actual data corresponding to the assigned weights are shown in FIG. 2.

TABLE 1
		Chromosome
GeneID	Weight	Location	Description
825470	0.9946555	17q21-q22	topoisomerase (DNA) II alpha
			(170 kD)
595213	0.9884884	8	hypothetical protein
796694	0.9852686	17q25	baculoviral IAP repeat-
			containing 5 (survivin)
1404774	−1.5638738	12p12.1-p11.2	parathyroid hormone-like
			hormone
823871	−1.5260464	7	SPARC-like 1 (mast9, hevin)
1882697	−1.401878	17q22-q23	peanut (Drosophila)-like 2
140071	−1.3881954	2	frizzled-related protein
160192	−1.2551663	5	ESTs, Weakly similar to
			2004399A chromosomal
			protein [H. sapiens]
796542	−1.1401853	3q28	ets variant gene 5
			(ets-related molecule)
611532	−1.1227597	11p15.5	troponin I, skeletal, fast

Examples III

Genes for Discriminating Between Normal and Non-Normal (a Combination of ADH, DCIS, and IDC) Cells from Breast Tissue

As shown in Table 2 below, 850 genes were identified as being able to discriminate between normal and “abnormal” (defined in this instance as any sample that was not normal), which includes ADH, DCIS and IDC.

TABLE 2
CloneID	Weight	Description
1323448	1.5470535	cysteine-rich protein 1 (intestinal)
788654	1.4818381	growth factor receptor-bound protein 2
35147	1.3764654	“ESTs, Weakly similar to unnamed protein product
		[H. sapiens]”
745606	1.3470375	hypothetical protein PP591
1500000	1.3204029	“H2B histone family, member B”
595037	1.3057353	retinoic acid induced 3
565319	1.2369212	Homo sapiens mRNA; cDNA DKFZp564B1264 (from clone
		DKFZp564B1264)
122077	1.2356703	putative membrane protein
1609836	1.2349106	glutamate-ammonia ligase (glutamine synthase)
1505038	1.2292506	hypothetical protein FLJ20171
178805	1.2225746	“Human DNA sequence from clone RP5-850E9 on
		chromosome 20. Contains part of the gene for a novel
		C2H2 type zinc finger protein similar to DrosophilaScratch
		(Scrt), Slug and Xenopus Snail, a novel gene similar to
		Drosophila CG6762, STSs, GSSs and five CpG
812238	1.2132886	hypothetical protein MGC4692
1492238	1.1991653	HSPC003 protein
366132	1.1911439	“succinate dehydrogenase complex, subunit C, integral
		membrane protein, 15 kD”
796469	1.1850928	HSPC150 protein similar to ubiquitin-conjugating enzyme
488964	1.1545223	“H2A histone family, member O”
471568	1.1466811	hematological and neurological expressed 1
1554549	1.1440029	hydroxyacyl glutathione hydrolase
283919	1.118257	“H2A histone family, member L”
1492463	1.087152	“selenoprotein X, 1”
199403	1.082569	“lectin, galactoside-binding, soluble, 8 (galectin 8)”
796723	1.0724133	Homo sapiens clone CDABP0014 mRNA sequence
138189	1.0692241	Wolfram syndrome 1 (wolframin)
1574058	1.0651351	“1-acylglycerol-3-phosphate O-acyltransferase 2
		(lysophosphatidic acid acyltransferase, beta)”
811774	1.0617336	CGI-49 protein
359887	1.052326	translocase of inner mitochondrial membrane 17 (yeast)
		homolog A
1709791	1.0378948	BAI1-associated protein 1
244801	1.0162794	Rho guanine exchange factor (GEF) 11
1917941	0.9960315	purine-rich element binding protein B
1858892	0.9897362	hypothetical protein MGC4825
288999	0.9896012	small protein effector 1 of Cdc42
503215	0.9757636	pilin-like transcription factor
1911343	0.967716	“RAB26, member RAS oncogene family”
2029173	0.9672743	“ESTs, Weakly similar to N-WASP [H. sapiens]”
470061	0.9665514	seven in absentia (Drosophila) homolog 2
2016908	0.9615102	“ESTs, Weakly similar to CA13_HUMAN COLLAGEN
		ALPHA 1(III) CHAIN PRECURSOR [H. sapiens]”
1469425	0.9610542	SRY (sex determining region Y)-box 22
814054	0.958989	KIAA0040 gene product
814528	0.9569471	“Homo sapiens cDNA: FLJ22139 fis, clone HEP20959”
68636	0.9562688	hypothetical protein MGC2477
290841	0.9562201	“H2B histone family, member A”
236034	0.9534619	“uncoupling protein 2 (mitochondrial, proton carrier)”
782428	0.9524489	KIAA0250 gene product
131094	0.9518372	“Homo sapiens cDNA: FLJ21587 fis, clone COL06946”
488202	0.9501137	“ESTs, Weakly similar to YZ28_HUMAN HYPOTHETICAL
		PROTEIN ZAP128 [H. sapiens]”
1435862	0.9500093	“antigen identified by monoclonal antibodies 12E7, F21 and
		O13”
823598	0.9452282	“proteasome (prosome, macropain) 26S subunit, non-
		ATPase, 12”
1492426	0.9397097	chromosome 19 open reading frame 3
795185	0.9295627	xenotropic and polytropic retrovirus receptor
810558	0.9227709	“proteasome (prosome, macropain) 26S subunit, ATPase,
		4”
469686	0.9203022	“Ric (Drosophila)-like, expressed in many tissues”
280375	0.9155003	PRO2000 protein
729975	0.9149894	meningioma expressed antigen 5 (hyaluronidase)
810124	0.9124035	“platelet-activating factor acetylhydrolase, isoform Ib,
		gamma subunit (29 kD)”
813281	0.9107661	WW domain-containing protein 1
39884	0.9091807	IMP (inosine monophosphate) dehydrogenase 1
76605	0.9028609	nesca protein
1636092	0.8997881	hypothetical protein FLJ20657
741474	0.8925439	glucose phosphate isomerase
1605426	0.8909868	hypothetical protein FLJ13352
788654	0.8886269
868128	0.8873517	JM4 protein
308466	0.8803492	GTP-binding protein Sara
44292	0.8732235	Homo sapiens mRNA; cDNA DKFZp434C107 (from clone
		DKFZp434C107)
826256	0.8700831	transmembrane 7 superfamily member 1 (upregulated in
		kidney)
685516	0.8694652	putative G protein-coupled receptor
810711	0.869424	stearoyl-CoA desaturase (delta-9-desaturase)
753299	0.8679015	hypothetical protein FLJ10504
731044	0.8657953	glutaredoxin 2
824052	0.8650616	chromosome 6 open reading frame 1
843195	0.86501	phosphoserine phosphatase
292770	0.8570995	“Homo sapiens, clone IMAGE: 3627860, mRNA, partial cds”
859761	0.8563964	poliovirus receptor-related 2 (herpesvirus entry mediator B)
347373	0.8555396	“transcription elongation factor B (SIII), polypeptide 1
		(15 kD, elongin C)”
1640821	0.8544081	“ESTs, Weakly similar to I78885 serine/threonine-specific
		protein kinase [H. sapiens]”
704414	0.8520508	small nuclear ribonucleoprotein polypeptides B and B1
810725	0.8510425	“ATPase, H+ transporting, lysosomal (vacuolar proton
		pump) 21 kD”
782608	0.8507815	mitochondrial ribosomal protein L9
2019223	0.849044	mitochondrial ribosomal protein L17
2110511	0.8471736	artemin
1474955	0.8460414	“TATA box binding protein (TBP)-associated factor, RNA
		polymerase II, N, 68 kD (RNA-binding protein 56)”
810612	0.842284	S100 calcium-binding protein A11 (calgizzarin)
744417	0.8409538	carnitine acetyltransferase
969877	0.8382113	“synaptosomal-associated protein, 25 kD”
272529	0.8371698	phosphomannomutase 2
768570	0.8371438	hypothetical protein FLJ11280
824879	0.8366695	hypothetical protein MGC11275
2014034	0.8354357	“methylene tetrahydrofolate dehydrogenase (NAD+
		dependent), methenyltetrahydrofolate cyclohydrolase”
2054635	0.831532	“proteasome (prosome, macropain) subunit, alpha type, 7”
2052113	0.8307595	hypothetical protein FLJ10903
742595	0.8291965	cyclin-dependent kinase 5
2016648	0.8263671	Homo sapiens mRNA; cDNA DKFZp434N1728 (from clone
		DKFZp434N1728)
1573251	0.823025	peroxisomal long-chain acyl-coA thioesterase
1869201	0.8202299	hypothetical protein MGC2745
37708	0.8194577	hypothetical protein MGC3101
241348	0.8182422	prenylcysteine lyase
810063	0.8168926	“growth factor, erv1 (S. cerevisiae)-like (augmenter of liver
		regeneration)”
731308	0.8166873	citrate synthase
209066	0.8120797
590774	0.8100386	mitogen-activated protein kinase 13
1435003	0.8098225	tumor suppressing subtransferable candidate 1
502774	0.8091404	hypothetical protein FLJ20623
488505	0.808712	accessory proteins BAP31/BAP29
109863	0.8066906	epithelial membrane protein 2
813419	0.8043966	“hydroxyacyl-Coenzyme A dehydrogenase, type II”
1845169	0.8033348	“RAB35, member RAS oncogene family”
742707	0.7955239	“ESTs, Weakly similar to MUC2_HUMAN MUCIN 2
		PRECURSOR [H. sapiens]”
594500	0.7935958	EST
1456701	0.7934389	B-cell CLL/lymphoma 9
271472	0.7901735	C3HC4-like zinc finger protein
1473922	0.7892502	“actin related protein 2/3 complex, subunit 3 (21 kD)”
51773	0.7858986	hypothetical protein MGC3077
898032	0.7852733	KIAA0097 gene product
340558	0.7791736	“actin related protein 2/3 complex, subunit 5 (16 kD)”
773922	0.7767604	KIAA0005 gene product
768064	0.7743382	“cytochrome P450, subfamily I (aromatic compound-
		inducible), polypeptide 1”
625923	0.7725056	phosphoenolpyruvate carboxykinase 2 (mitochondrial)
150003	0.77183	hypothetical protein FLJ13187
741977	0.7715372	“B-factor, properdin”
365738	0.7709456	ESTs
814350	0.7701748	insulin-degrading enzyme
2108077	0.7700354	CGI-112 protein
209066	0.7693907	serine/threonine kinase 15
564492	0.7672548	mitochondrial carrier homolog 2
366353	0.7664569	DKFZP564C186 protein
813751	0.7659116	“sialyltransferase 4C (beta-galactosidase alpha-2,3-
		sialytransferase)”
781097	0.7633668	reticulon 3
233349	0.762952	hypothetical protein FLJ10761
825327	0.7622414	“Homo sapiens cDNA FLJ14105 fis, clone
		MAMMA1001202”
248649	0.761865	hypothetical protein FLJ13910
589232	0.7583348	hypothetical protein FLJ11506
564847	0.757516	ESTs
754628	0.7573763	ESTs
1500162	0.7571399	ESTs
1738208	0.7565056	“a disintegrin-like and metalloprotease (reprolysin type)
		with thrombospondin type 1 motif, 4”
842994	0.7563101	cathepsin Z
42408	0.7559848	hypothetical protein MGC4604
470124	0.7539249	RAD1 (S. pombe) homolog
809357	0.7535411	Bernardinelli-Seip congenital lipodystrophy 2 (seipin)
624667	0.7524325	CGI-92 protein
49351	0.75115	SEX gene
46248	0.7510436	ADP-ribosyltransferase (NAD+; poly (ADP-ribose)
		polymerase)
686552	0.7506994	golgi phosphoprotein 1
1631735	0.7505843	“Homo sapiens, clone IMAGE: 3604336, mRNA, partial cds”
1536006	0.7499887	ESTs
83363	0.748646	protein-L-isoaspartate (D-aspartate) O-methyltransferase
713782	0.7484589	a disintegrin and metalloproteinase domain 15 (metargidin)
727078	0.7472345	“Homo sapiens cDNA: FLJ23602 fis, clone LNG15735”
503889	0.7454098	hypothetical protein FLJ10656
284261	0.7445419	uncharacterized hematopoietic stem/progenitor cells
		protein MDS030
1473289	0.7441483	protective protein for beta-galactosidase (galactosialidosis)
49273	0.742123	“solute carrier family 27 (fatty acid transporter), member 4”
785701	0.7413837	“RAB31, member RAS oncogene family”
41569	0.7412357	hypothetical protein FLJ12650
810402	0.7407907	hypothetical protein
1456348	0.7397574	N-acetylneuraminic acid phosphate synthase; sialic acid
		synthase
256619	0.7395032	hydroxysteroid (17-beta) dehydrogenase 7
743589	0.7372744	“ESTs, Weakly similar to T2D3_HUMAN TRANSCRIPTION
		INITIATION FACTOR TFIID 135 KDA SUBUNIT
		[H. sapiens]”
1409509	0.7370811	“troponin T1, skeletal, slow”
122241	0.7352191	“proteasome (prosome, macropain) subunit, beta type, 2”
470099	0.7343404	HT002 protein; hypertension-related calcium-regulated
		gene
725454	0.7335223	CDC28 protein kinase 2
796694	0.7317383	baculoviral IAP repeat-containing 5 (survivin)
186768	0.7298378	“Homo sapiens, clone IMAGE: 3604869, mRNA”
813629	0.7288266	YME1 (S. cerevisiae)-like 1
842980	0.7284256	developmentally regulated GTP-binding protein 1
769921	0.726646	ubiquitin carrier protein E2-C
2322367	0.7249854	reticulon 4
951233	0.7240615	“proteasome (prosome, macropain) subunit, beta type, 3”
842825	0.7235007	G1 to S phase transition 1
782608	0.7230962
2043167	0.7224903	BCL2-associated athanogene 3
827171	0.7211896	ESTs
120271	0.7208543	hypothetical protein MGC4692
1518890	0.7206844	“metallothionein-like 5, testis-specific (tesmin)”
60565	0.720547	lethal giant larvae (Drosophila) homolog 2
2050827	0.7156518	“proteasome (prosome, macropain) 26S subunit, ATPase,
		5”
1635681	0.7152705	“NADH dehydrogenase (ubiquinone) 1 alpha subcomplex,
		2 (8 kD, B8)”
731023	0.7151176	WD repeat domain 5
1518402	0.7150061	KIAA1361 protein
752631	0.7139862	“fibroblast growth factor receptor 3 (achondroplasia,
		thanatophoric dwarfism)”
785616	0.7131593	“signal sequence receptor, alpha (translocon-associated
		protein alpha)”
686172	0.7131363	KIAA0008 gene product
40173	0.7124913	KIAA0807 protein
123441	0.7124698	ribosomal protein L7a
123614	0.7117834	hypothetical protein MGC4675
811024	0.7117211	bone marrow stromal cell antigen 2
2302099	0.7117055	sialidase 3 (membrane sialidase)
756442	0.7115925	P450 (cytochrome) oxidoreductase
811585	0.7087617	huntingtin (Huntington disease)
279970	0.7040135	adenosine A2a receptor
1517171	0.7036866	“interleukin 2 receptor, alpha”
838366	0.702617	3-hydroxymethyl-3-methylglutaryl-Coenzyme A lyase
		(hydroxymethylglutaricaciduria)
809944	0.7021108	KIAA0310 gene product
1393018	0.701717	“general transcription factor IIIC, polypeptide 1 (alpha
		subunit, 220 kD)”
725978	0.7010756	“ESTs, Moderately similar to ALU7_HUMAN ALU
		SUBFAMILY SQ SEQUENCE CONTAMINATION
		WARNING ENTRY [H. sapiens]”
325606	0.7008219	hypothetical protein MGC14353
795256	0.6974866	NPD007 protein
365358	0.696963	pM5 protein
67765	0.6967324	carboxypeptidase M
358267	0.6962436	“EST, Moderately similar to AF119917 63 PRO2831
		[H. sapiens]”
149355	0.6943923	translocating chain-associating membrane protein
212542	0.6938079	“Homo sapiens cDNA FLJ12900 fis, clone
		NT2RP2004321”
79520	0.6919579	“RAB2, member RAS oncogene family”
739126	0.6881663	tissue specific transplantation antigen P35B
202514	0.6872212	DNA (cytosine-5-)-methyltransferase 3 alpha
1884404	0.6864546	KIAA0285 gene product
814378	0.6857148	“serine protease inhibitor, Kunitz type, 2”
2018337	0.6828744	“glucosidase, beta; acid (includes glucosylceramidase)”
701751	0.6824676	cut (Drosophila)-like 1 (CCAAT displacement protein)
2018084	0.6822251	Ste-20 related kinase
781019	0.6819736	paraoxonase 2
2244196	0.6807351	B-cell receptor-associated protein BAP29
124447	0.679866	KIAA1184 protein
789012	0.6794432	fibulin 2
490778	0.6788304	low molecular mass ubiquinone-binding protein (9.5 kD)
2011515	0.6774452	DKFZP586B0923 protein
80764	0.6765616	hypothetical protein
841679	0.6762195	calcium and integrin binding protein (DNA-dependent
		protein kinase interacting protein)
108425	0.6761526
878406	0.6750777	metaxin 1
487733	0.6745496
625693	0.6744622	hypothetical protein MGC10911
1325816	0.6742078	polymerase (RNA) II (DNA directed) polypeptide L (7.6 kD)
278531	0.6737637	cytochrome c oxidase subunit VIc
744374	0.6732551	putative ankyrin-repeat containing protein
203003	0.6724027	“non-metastatic cells 4, protein expressed in”
564981	0.6712134	ESTs
812994	0.671102	“retinoid X receptor, alpha”
172517	0.6701228	hippocalcin-like 1
205049	0.6682666	protein kinase H11; small stress protein-like protein HSP22
1734309	0.6672454	sperm associated antigen 4
1631699	0.6665952	valosin-containing protein
2028949	0.6662774	hypothetical protein PRO1855
530197	0.6659784	“ESTs, Moderately similar to ALU8_HUMAN ALU
		SUBFAMILY SX SEQUENCE CONTAMINATION
		WARNING ENTRY [H. sapiens]”
199645	0.6654138	nicastrin
704254	0.6653635	a disintegrin and metalloproteinase domain 8
1592715	0.6637095	“Homer, neuronal immediate early gene, 3”
302031	0.6626629	Ste20-related serine threonine kinase
239568	0.661735	annexin A9
770785	0.6613519	“1,2-alpha-mannosidase IC”
785795	0.660789	hypothetical protein FLJ12910
810734	0.6603412	“polymerase (DNA-directed), delta 4”
1696757	0.6591801	hypothetical protein KIAA1165
811761	0.6587469	Nijmegen breakage syndrome 1 (nibrin)
150314	0.6584621	lysophospholipase I
489351	0.65846	hypothetical protein DKFZp566J2046
593431	0.6578268	“ESTs, Moderately similar to CEGT_HUMAN CERAMIDE
		GLUCOSYLTRANSFERASE [H. sapiens]”
37554	0.6574292	hypothetical protein FLJ22353
126851	0.6559601	hypothetical protein FLJ11160
265103	0.6548137	Homo sapiens mRNA; cDNA DKFZp547M123 (from clone
		DKFZp547M123)
51083	0.6544472	“catenin (cadherin-associated protein), delta 2 (neural
		plakophilin-related arm-repeat protein)”
431505	0.6534315	“ESTs, Highly A31026 probable membrane
		receptor protein [H. sapiens]”
1420370	0.6531171	biliverdin reductase B (flavin reductase (NADPH))
1476053	0.6522237	RAD51 (S. cerevisiae) homolog (E coli RecA homolog)
882484	0.6521026	“chaperonin containing TCP1, subunit 7 (eta)”
51532	0.6504769	ADP-ribosylation factor-like 6 interacting protein
280249	0.6503028	Kruppel-like factor 7 (ubiquitous)
138788	0.6497728	prolactin receptor
1492468	0.647846	DEME-6 protein
221295	0.6477514	“inhibitor of DNA binding 2, dominant negative helix-loop-
		helix protein”
897806	0.6470379	“hypoxia-inducible factor 1, alpha subunit (basic helix-loop-
		helix transcription factor)”
358936	0.6441198	“ESTs, Weakly similar to T2D3_HUMAN TRANSCRIPTION
		INITIATION FACTOR TFIID 135 KDA SUBUNIT
		[H. sapiens]”
840865	0.644011	“myristoylated alanine-rich protein kinase C substrate
		(MARCKS, 80K-L)”
788334	0.6427785	mitochondrial ribosomal protein L23
366067	0.6416356	cerebellar degeneration-related protein (62 kD)
825585	0.6413235	tubulin-specific chaperone e
1460110	0.6397172	“proteasome (prosome, macropain) subunit, beta type, 5”
344091	0.6381862	ESTs
196189	0.6338517	cytochrome b-5
2248488	0.6337488	ems1 sequence (mammary tumor and squamous cell
		carcinoma-associated (p80/85 src substrate)
509823	0.6334191	carcinoembryonic antigen-related cell adhesion molecule 6
		(non-specific cross reacting antigen)
144880	0.6332999	hypothetical protein from EUROIMAGE 1759349
755599	0.6330221	interferon induced transmembrane protein 1 (9-27)
207288	0.632639	insulin induced gene 1
1639531	0.6315732	“RAB27A, member RAS oncogene family”
144740	0.630134	similar to phosphatidylcholine transfer protein 2
814306	0.630078	tumor protein D52
301122	0.6299499	extracellular matrix protein 1
124298	0.6294358	microsomal glutathione S-transferase 3
1733262	0.6293971	BLu protein
376875	0.6286902	flavin containing monooxygenase 1
773188	0.6270494	“nuclear receptor subfamily 1, group D, member 2”
756666	0.6269882	“protein phosphatase 1, catalytic subunit, alpha isoform”
810156	0.6266313	deoxythymidylate kinase (thymidylate kinase)
2015517	0.6259564	hypothetical protein FLJ22237
770845	0.6253839	hexokinase 1
813707	0.6252347	regulator of G-protein signalling 16
611443	0.6244565	myoglobin
124331	0.624455	“cleavage and polyadenylation specific factor 5, 25 kD
		subunit”
855800	0.6235647	prolyl endopeptidase
625234	0.62188	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein
		retention receptor 3
753378	0.6218232	hypothetical protein FLJ22649 similar to signal peptidase
		SPC22/23
2055807	0.6216372	protein kinase domains containing protein similar to
		phosphoprotein C8FW
840878	0.6216124	seladin-1
1700436	0.6215741	ESTs
261472	0.6215341	putative nuclear protein ORF1-FL49
121251	0.6209436	hypothetical protein MGC5576
140289	0.6205892	hypothetical protein
2018821	0.6205344	ATPase inhibitor precursor
770766	0.6193342	DKFZP564C1940 protein
767798	0.6192232	“ATX1 (antioxidant protein 1, yeast) homolog 1”
845363	0.617901	“non-metastatic cells 1, protein (NM23A) expressed in”
120749	0.6172281	“ESTs, Moderately similar to KIAA1215 protein [H. sapiens]”
358162	0.616765	protein predicted by clone 23627
781342	0.6159353	hypothetical protein MGC11115
767761	0.6142782	DKFZP434B168 protein
191904	0.6141265	“BUB3 (budding uninhibited by benzimidazoles 3, yeast)
		homolog”
726699	0.6131491	“ESTs, Weakly similar to AAB47496 NG5 [H. sapiens]”
2326057	0.61263	MLN51 protein
784140	0.6102245	WD repeat domain 15
770355	0.6099761	“lanosterol synthase (2,3-oxidosqualene-lanosterol
		cyclase)”
81336	0.6099072	uteroglobin
757328	0.6097389	hypothetical protein FLJ22678
773674	0.6095732	oncogene TC21
289978	0.6090234	ubiquitin-like 4
66535	0.6088919	ornithine decarboxylase antizyme 2
826363	0.6087183	lysophospholipase II
1758590	0.6074571	“fatty-acid-Coenzyme A ligase, long-chain 3”
1553306	0.6066787	“proteasome (prosome, macropain) 26S subunit, non-
		ATPase, 11”
785766	0.6058332	hypothetical protein
725841	0.6051304	KIAA0662 gene product
2020898	0.6044163	“procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3”
504308	0.6041122	hypothetical protein FLJ10540
510575	0.6040713	hypothetical protein FLJ22087
49630	0.6027878	“calcium channel, voltage-dependent, L type, alpha 1D
		subunit”
142586	0.602037	MCT-1 protein
725284	0.6014099	“phosphorylase kinase, gamma 2 (testis)”
429799	0.6012713	hypothetical protein FLJ21939 similar to 5-azacytidine
		induced gene 2
1474424	0.6006702	“Homo sapiens cDNA FLJ12758 fis, clone
		NT2RP2001328”
784105	0.6003082	ESTs
2018527	0.599584	dolichyl-phosphate mannosyltransferase polypeptide 3
855563	0.5987092	v-erb-b2 avian erythroblastic leukemia viral oncogene
		homolog 3
823574	0.5978052	endosulfine alpha
323693	0.5975785	“adaptor-related protein complex 1, sigma 1 subunit”
824962	0.595868	“karyopherin alpha 2 (RAG cohort 1, importin alpha 1)”
773426	0.5941568	KIAA0391 gene product
772925	0.5940171	HSPCO34 protein
1656062	0.593408	coagulation factor XII (Hageman factor)
825740	0.5931142	DKFZp434J1813 protein
376516	0.5906248	cell division cycle 4-like
292213	0.5883092	“guanine nucleotide binding protein (G protein), beta
		polypeptide 2”
1898619	0.5880791	hypothetical protein MGC15737
414992	0.587733	K562 cell-derived leucine-zipper-like protein 1
1573946	0.5875624	programmed cell death 9
739109	0.5874334	“adaptor-related protein complex 2, sigma 1 subunit”
430235	0.585372	“H2B histone family, member Q”
2572170	0.5852444	“ESTs, Weakly similar to T26581 hypothetical protein
		Y32B12A.3 - Caenorhabditis elegans [C. elegans]”
487733-2	0.5844776	“NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 2
		(8 kD, AGGG)”
1698036	0.5843382	ubiquitin-conjugating enzyme E2 variant 1
127646	0.5838788
346696	0.5838269	TEA domain family member 4
74738	0.5835427	“Homo sapiens, clone IMAGE: 3535294, mRNA, partial cds”
124781	0.5832065	squalene epoxidase
1883028	0.5828007	Homo sapiens mRNA; cDNA DKFZp434J1912 (from clone
		DKFZp434J1912)
183200	0.5801312	fumarylacetoacetate hydrolase (fumarylacetoacetase)
51741	0.5795151	GTP-binding protein
590759	0.5791873	sterol-C4-methyl oxidase-like
755301	0.5790795	“protein kinase C, delta”
843054	0.5776102	KIAA1533 protein
595213	0.5775511	hypothetical protein
752643	0.5774681	group XII secreted phospholipase A2
141852	0.5762886	“purinergic receptor P2Y, G-protein coupled, 2”
813631	0.5754418	seven transmembrane protein TM7SF3
1601947	0.5744444	cytochrome c oxidase subunit VIIa polypeptide 2 (liver)
51657	0.5736969	hypothetical protein ET
814209	0.5736866	ESTs
72050	0.5722845	“chloride channel, nucleotide-sensitive, 1A”
1635665	0.5714089	“Homo sapiens, RIKEN cDNA 2010100O12 gene, clone
		MGC: 14813 IMAGE: 4133274, mRNA, complete cds”
66406	0.5706229	hypothetical protein DKFZp762E1312
530310	0.5686743	KIAA0143 protein
41356	0.5683316	“protein phosphatase 2, regulatory subunit B (B56), alpha
		isoform”
1844765	0.5670398	Homo sapiens mRNA; cDNA DKFZp564O1763 (from clone
		DKFZp564O1763)
489823	0.5666593	“COX17 (yeast) homolog, cytochrome c oxidase assembly
		protein”
1517749	0.5665848	ESTs
813410	0.5664086	polymerase (RNA) II (DNA directed) polypeptide K (7.0 kD)
1416782	0.5657017	“creatine kinase, brain”
1422338	0.5652946	ribonucleotide reductase M2 polypeptide
250313	0.5649247	ESTs
235986	0.5649127	“wingless-type MMTV integration site family, member 11”
66317	0.5648355	“H1 histone family, member 2”
279720	0.5645072	“ESTs, Moderately similar to A47582 B-cell growth factor
		precursor [H. sapiens]”
884498	0.5640535	uncharacterized hypothalamus protein HT012
503851	0.564048	nuclear receptor co-repressor/HDAC3 complex subunit
823930	0.5633774	“actin related protein 2/3 complex, subunit 1A (41 kD)”
120271	0.5626611	hypothetical protein MGC4692
782513	0.5625811	“interferon, alpha-inducible protein (clone IFI-6-16)”
246800	0.5625675	hypothetical protein FLJ10803
2309073	0.5617024	frizzled (Drosophila) homolog 5
784150	0.5598483	“RAB31, member RAS oncogene family”
139835	0.5590106	UDP-glucose dehydrogenase
1641894	0.5587185	EST
796757	0.5585876	“adaptor-related protein complex 3, sigma 1 subunit”
813616	0.5574238	FK506-binding protein like
2549634	0.5572052	activator of S phase kinase
741769	0.5565863	“polymerase (DNA directed), beta”
488642	0.5560728	“ESTs, Weakly similar to I38022 hypothetical protein
		[H. sapiens]”
795498	0.5557245	putative transmembrane protein
1492780	0.5555908	“Homo sapiens cDNA FLJ14459 fis, clone
		HEMBB1002409”
241043	0.5545302	“Human clone 137308 mRNA, partial cds”
295986	0.5544422	emopamil-binding protein (sterol isomerase)
839682	0.5542571	ubiquitin-conjugating enzyme E2N (homologous to yeast
		UBC13)
1581941	0.5537015	hypothetical protein FLJ14540
809466	0.5532437	DNA segment on chromosome 19 (unique) 1177
		expressed sequence
1947381	0.5524634	hypothetical protein FLJ22329
825470	0.5523318	topoisomerase (DNA) II alpha (170 kD)
1848977	0.5519913	glycerol kinase
700792	0.5493223	cyclin-dependent kinase inhibitor 3 (CDK2-associated dual
		specificity phosphatase)
825386	0.5487104	“ATP synthase, H+ transporting, mitochondrial F1F0,
		subunit d”
826194	0.5486839	synaptotagmin-like 2
299815	0.5485843	hypothetical protein DC42
1753497	0.5485231	ovo (Drosophila) homolog-like 1
744944	0.5482368	myosin VI
1499828	0.5479012	“fucosyltransferase 1 (galactoside 2-alpha-L-
		fucosyltransferase, Bombay phenotype included)”
415102	0.5465851	cell division cycle 25C
813387	0.5460577	diaphorase (NADH/NADPH) (cytochrome b-5 reductase)
786265	0.5443881	KIAA0750 gene product
1591264	0.5440944	transaldolase 1
756595	0.5433619	“S100 calcium-binding protein A10 (annexin II ligand,
		calpactin I, light polypeptide (p11))”
855749	0.5432466	triosephosphate isomerase 1
470092	0.5429717	like-glycosyltransferase
244764	0.5424555	B7 homolog 3
1637282	0.542121	hexokinase 2
417801	0.5414761	mitochondrial ribosomal protein L27
826077	0.5405591	pyruvate dehydrogenase (lipoamide) beta
757489	0.5386267	“tubulin, alpha 2”
327635	0.5368033	adenylate kinase 1
343731	0.5365018
786067	0.5361882	cell division cycle 25B
2017415	0.5353408	centromere protein A (17 kD)
292996	0.5341429	“tyrosine 3-monooxygenase/tryptophan 5-monooxygenase
		activation protein, eta polypeptide”
815781	0.5340254	heat shock 105 kD
346942	0.5326646	“phosphatidylinositol glycan, class Q”
823694	0.5321203	“Homo sapiens chromosome 19, BAC CIT-HSPC_204F22
		(BC228680), complete sequence; contains bacterial
		insertion element”
139354	0.5318709	hypothetical protein
221499	0.5317861	KIAA0508 protein
263727	0.5313082	“DNA segment, single copy probe LNS-CAI/LNS-CAII
		(deleted in polyposis”
489594	0.5308806	hypothetical protein FLJ11565
824524	0.5296138	UDP-galactose transporter related
951216	0.5291832	“NADH dehydrogenase (ubiquinone) 1 beta subcomplex,
		10 (22 kD, PDSW)”
841260	0.5285587	hypothetical protein
283739	0.5276555	“Homo sapiens cDNA FLJ14028 fis, clone
		HEMBA1003838”
49117	0.5274035	KIAA0215 gene product
1762111	0.5272967	natriuretic peptide receptor C/guanylate cyclase C
		(atrionatriuretic peptide receptor C)
358609	0.5266332	NADH dehydrogenase (ubiquinone) flavoprotein 3 (10 kD)
884425	0.5265114	“chaperonin containing TCP1, subunit 5 (epsilon)”
795401	0.5264278	diacylglycerol O-acyltransferase (mouse) homolog
811907	0.5246416	hypothetical protein FLJ22056
1631747	0.5245873	male-enhanced antigen
365060	0.5244569	“RAB11A, member RAS oncogene family”
743220	0.5242028	hypothetical protein FLJ12517
705064	0.5238148	“transforming, acidic coiled-coil containing protein 3”
768452	0.5237494	“Homo sapiens EST from clone 491476, full insert”
743977	0.5237158	Homo sapiens mRNA for TL132
1568825	0.5205165	Arg/Abl-interacting protein ArgBP2
772898	0.520392	ribosomal protein S15a
366834	0.5191005	envoplakin
1616253	0.5190257	breast carcinoma amplified sequence 1
322617	0.5188645	v-ral simian leukemia viral oncogene homolog B (ras
		related; GTP binding protein)
825296	0.5178447	low density lipoprotein receptor defect C complementing
491524	0.5175752	mitochondrial ribosomal protein L13
143426	0.5173212	“ras homolog gene family, member B”
73009	0.516678	“ESTs, Weakly similar to A43932 mucin 2 precursor,
		intestinal [H. sapiens]”
293569	0.5162069	chromosome 1 open reading frame 21
296702	0.5162041	“deiodinase, iodothyronine, type I”
773286	0.5158979	“solute carrier family 9 (sodium/hydrogen exchanger),
		isoform 3 regulatory factor 1”
726658	0.5157542	“non-metastatic cells 3, protein expressed in”
753897	0.5153412	autocrine motility factor receptor
293727	0.5153298	hypothetical protein MGC861
810947	0.5151346	“LIS1-interacting protein NUDE1, rat homolog”
491465	0.5150527	hypothetical protein FLJ10035
814899	0.5142481	BCL2/adenovirus E1B 19 kD-interacting protein 3-like
266500	0.5135558	ESTs
1159963	0.5133656	interferon regulatory factor 7
785707	0.5133005	protein regulator of cytokinesis 1
346134	0.5132068	calcium-regulated heat-stable protein (24 kD)
486110	0.5127183	profilin 2
2017403	0.5117711	regulator of G-protein signalling 3
491527	0.5116183	“Homo sapiens, Similar to CG7083 gene product, clone
		MGC: 10534 IMAGE: 3957147, mRNA, complete cds”
769600	0.5106262	uracil-DNA glycosylase 2
1558233	0.5101529	ESTs
649084	0.5099122	carbonic anhydrase XI
825822	0.5097808	hypothetical protein
1461477	0.509331	Homo sapiens mRNA; cDNA DKFZp586I0324 (from clone
		DKFZp586I0324)
327506	0.5092192	Homo sapiens mRNA full length insert cDNA clone
		EUROIMAGE 327506
769942	0.509086	kinesin-like 4
505289	0.5080495	“angiotensin II, type I receptor-associated protein”
726439	0.5080059	CGI-143 protein
79726	0.5078677	“ESTs, Highly similar to T46395 hypothetical protein
		DKFZp434I1120.1 [H. sapiens]”
810762	0.5072899	SNARE protein
785793	0.5072717	“capping protein (actin filament) muscle Z-line, alpha 1”
81599	0.5067033	ubiquitin specific protease 14 (tRNA-guanine
		transglycosylase)
294397	0.5066683	DKFZP586A0522 protein
1947647	0.5064941	CGI-147 protein
795805	0.5064099	KIAA0332 protein
810959	0.505619	Rho GDP dissociation inhibitor (GDI) alpha
2322223	0.5047814	small nuclear ribonucleoprotein polypeptide A
472103	0.503987	“soc-2 (suppressor of clear, C. elegans) homolog”
810609	0.5036493	hypothetical protein PP1226
897813	0.5034689	polyadenylate binding protein-interacting protein 1
1500542	0.5032679	regulator of G-protein signalling 11
839746	0.5031787	“Homo sapiens, Similar to RIKEN cDNA 5830420C20
		gene, clone IMAGE: 3633379, mRNA, partial cds”
343607	0.5029133	AD-015 protein
649977	0.5002695	Homo sapiens clone CDABP0014 mRNA sequence
823940	0.4997308	“transducer of ERBB2, 1”
2250839	0.4994848	androgen receptor (dihydrotestosterone receptor; testicular
		feminization; spinal and bulbar muscular atrophy; Kennedy
		disease)
731080	0.4979864	hypothetical protein FLJ12661
753400	0.496254	CGI-204 protein
869375	0.4958886	“isocitrate dehydrogenase 2 (NADP+), mitochondrial”
154610	0.4948571	dynactin 4
130835	0.4946783	“Homo sapiens, Similar to clone FLB3816, clone
		IMAGE: 3454380, mRNA”
859228	0.4942316	“isocitrate dehydrogenase 1 (NADP+), soluble”
41698	0.4938629	progesterone binding protein
30170	0.4936252	“caspase 3, apoptosis-related cysteine protease”
266218	0.4934791	hypothetical protein FLJ11350
509588	0.49319	“TATA box binding protein (TBP)-associated factor, RNA
		polymerase II, J, 20 kD”
1916575	0.4923447	BCL2-interacting killer (apoptosis-inducing)
744994	0.4916322	hypothetical protein FLJ12242
487444	0.4887966	“cyclic AMP phosphoprotein, 19 kD”
503866	0.4884193	sperm autoantigenic protein 17
814353	0.4883684	phorbol-12-myristate-13-acetate-induced protein 1
815501	0.4879053	hypothetical protein MGC2721
746163	0.4863317	“ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY
		J SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]”
347726	0.4837701	homeo box D8
897770	0.4836347
1854539	0.4824023	GAP-associated tyrosine phosphoprotein p62 (Sam68)
41123	0.481642	“Homo sapiens, Similar to RIKEN cDNA 2210021G21
		gene, clone MGC: 14859 IMAGE: 3621871, mRNA,
		complete cds”
856447	0.4816395	“interferon, gamma-inducible protein 30”
1568561	0.4808662	BCL2-like 1
744047	0.4802334	polo (Drosophia)-like kinase
290101	0.4800598	ESTs
455275	0.4788778	hypothetical protein FLJ23469
2069602	0.4786416	melanocortin 1 receptor (alpha melanocyte stimulating
		hormone receptor)
592801	0.4785497	“serine palmitoyltransferase, long chain base subunit 2”
741891	0.4775456	“RAB2, member RAS oncogene family-like”
1434948	0.4771454	HIV TAT specific factor 1
430614	0.476288	“2,3-bisphosphoglycerate mutase”
454896	0.4760701	“DnaJ (Hsp40) homolog, subfamily A, member 2”
268946	0.4751692	WD40 protein Ciao1
1572710	0.4750848	hypothetical protein FLJ21213
626318	0.4746692	ubinuclein 1
377384	0.4746085	“nuclear receptor subfamily 2, group F, member 2”
1632252	0.474559	“complement component 1, q subcomponent, alpha
		polypeptide”
489444	0.4741367	hypothetical protein FLJ20211
345787	0.4734963	“highly expressed in cancer, rich in leucine heptad repeats”
767487	0.4729158	“ariadne (Drosophila) homolog, ubiquitin-conjugating
		enzyme E2-binding protein, 1”
empty-31	0.4726918	blank
135640	0.4708685	syntaxin 3A
754653	0.4707927	“cadherin, EGF LAG seven-pass G-type receptor 3,
		flamingo (Drosophila) homolog”
1557637	0.4705061	ESTs
788641	0.4703576	“adaptor-related protein complex 1, sigma 2 subunit”
810567	0.4702908	“Homo sapiens, clone MGC: 3182 IMAGE: 3356293, mRNA,
		complete cds”
366039	0.4701924	KIAA0892 protein
781047	0.4699376	budding uninhibited by benzimidazoles 1 (yeast homolog)
782688	0.4694868	“dynein, axonemal, light intermediate polypeptide”
210862	0.4692392	“acyl-Coenzyme A oxidase 1, palmitoyl”
510794	0.4691467	c-myc binding protein
121436	0.4691298	“Homo sapiens, clone MGC: 4677 IMAGE: 3532809, mRNA,
		complete cds”
325515	0.4689353	hypothetical protein FLJ10980
965223	0.4687291	“thymidine kinase 1, soluble”
1469148	0.467634	FGFR1 oncogene partner
149539	0.4671676	KIAA1700
2306987	0.4670155	secreted and transmembrane 1
122147	0.4652151
2063982	0.4651856	“potassium channel, subfamily K, member 6 (TWIK-2)”
769890	0.4647115	nucleoside phosphorylase
1642496	0.4645092	hypothetical protein MGC11266
428582	0.4642013	hypothetical protein FLJ20296
66599	0.4639123	N-acetyltransferase 1 (arylamine N-acetyltransferase)
1565455	0.4634802	“nuclear receptor subfamily 2, group C, member 2”
810939	0.4634658	hypothetial protein FLJ22169
359723	0.4630712	mitochondrial elongation factor G
1027283	0.4628012	ESTs
1636844	0.4627748	ring finger protein 14
469151	0.4622121	“eukaryotic translation initiation factor 2, subunit 2 (beta,
		38 kD)”
813675	0.4614894	“Human D9 splice variant B mRNA, complete cds”
489657	0.4609514	tryptophan rich basic protein
469383	0.4607375	chromosome 8 open reading frame 1
40042	0.4604322	hypothetical protein FLJ10747
726637	0.45959	t-complex-associated-testis-expressed 1-like
811142	0.4595393	“phosphoinositide-3-kinase, regulatory subunit, polypeptide
		2 (p85 beta)”
179212	0.4594831	“ESTs, Moderately similar to T12539 hypothetical protein
		DKFZp434J154.1 [H. sapiens]”
292936	0.4593712	hypothetical protein FLJ10468
2046679	0.4579596	ESTs
810497	0.4572069	“ESTs, Weakly similar to A35363 synapsin I splice form a
		[H. sapiens]”
1585492	0.4571478	ESTs
782689	0.4570254	“solute carrier family 6 (neurotransmitter transporter,
		creatine), member 8”
774446	0.4567242	adrenomedullin
366156	0.4563893	“Homo sapiens cDNA FLJ14028 fis, clone
		HEMBA1003838”
725649	0.4559473	“nuclear factor of activated T-cells, cytoplasmic,
		calcineurin-dependent 4”
76362	0.4553121	“spectrin, alpha, non-erythrocytic 1 (alpha-fodrin)”
754046	0.4550413	DNA segment on chromosome X (unique) 9879 expressed
		sequence
345538	0.4550133	cathepsin L
782439	0.454474	“ATP synthase, H+ transporting, mitochondrial F0 complex,
		subunit e”
1537001	0.4539586	ESTs
345423	0.4538841	DKFZP564M112 protein
1702742	0.453453	“solute carrier family 7 (cationic amino acid transporter, y+
		system), member 5”
825659	0.4515758	N-myc downstream regulated
1652310	0.4512689	“Homo sapiens, clone MGC: 19613 IMAGE: 3833049,
		mRNA, complete cds”
1523225	0.4511104	oncostatin M receptor
40773	0.4510289	“guanine nucleotide binding protein (G protein), alpha z
		polypeptide”
35626	0.4509825	“Homo sapiens cDNA FLJ14201 fis, clone
		NT2RP3002955”
358217	0.4507923	glypican 4
214996	0.45033	ESTs
177827	0.4500254	synaptotagmin VII
1075635	0.4495618	MLSN1- and TRP-related
810039	0.4491986	defender against cell death 1
772220	0.4475721	for protein disulfide isomerase-related
70606	0.4475592	ESTs
1692195	0.4471181	smg GDS-ASSOCIATED PROTEIN
841621	0.4466003	“ESTs, Weakly similar to JE0350 Anterior gradient-2
		[H. sapiens]”
855707	0.4456433	ESTs
1455394	0.4455695	cytochrome c
85804	0.44449	hypothetical protein FLJ21918
809512	0.4442565	hypothetical protein FLJ10767
753457	0.4435792	NADH dehydrogenase (ubiquinone) Fe—S protein 1 (75 kD)
		(NADH-coenzyme Q reductase)
767289	0.4432685	hypothetical protein FLJ10055
565235	0.4428854	spermine synthase
611467	0.4428543	NADH dehydrogenase (ubiquinone) Fe—S protein 6 (13 kD)
		(NADH-coenzyme Q reductase)
812105	0.4424976	ALL1-fused gene from chromosome 1q
1558642	0.4424721	hypothetical protein MGC2771
814989	0.4419384	“protein phosphatase 1G (formerly 2C), magnesium-
		dependent, gamma isoform”
1899312	0.4418248	ESTs
1486533	0.441804	keratin 16 (focal non-epidermolytic palmoplantar
		keratoderma)
1565079	0.4415966	B-cell linker
783681	0.4412503	upstream regulatory element binding protein 1
1422723	0.4411931	interferon-induced protein 35
785368	0.4411742	PDZ-binding kinase; T-cell originated protein kinase
1517595	0.4409591	KIAA0175 gene product
713862	0.4400704	ubiquitin-protein isopeptide ligase (E3)
83358	0.4397161	ESTs
81203	0.4391758	paraoxonase 3
74070	0.4390933	endosulfine alpha
2306221	0.4385881	“wingless-type MMTV integration site family, member 10B”
140635	0.4384907	ESTs
150118	0.4383146	hypothetical protein DKFZp434F054
214068	0.4383007	GATA-binding protein 3
1434905	0.4382073	homeo box B7
450301	0.4380657	mutL (E. coli) homolog 3
2027952	0.437854	hypothetical protein FLJ20297
745394	0.4374406	“Homo sapiens cDNA: FLJ23249 fis, clone COL04196”
824108	0.4369933	SCAN domain-containing 1
795543	0.4364791	thioredoxin peroxidase (antioxidant enzyme)
1592837	0.4355927	interferon induced transmembrane protein 2 (1-8D)
77533	0.435582	“inositol polyphosphate-5-phosphatase, 40 kD”
1583198	0.4350835	“ESTs, Weakly similar to S65824 reverse transcriptase
		homolog [H. sapiens]”
84295	0.4349213	interleukin 1 receptor antagonist
770992	0.4346858
837864	0.4345283	progestin induced protein
1909574	0.4342055	mitochondrial ribosomal protein S11
128695	0.4340119	“ESTs, Weakly similar to I38344 titin, cardiac muscle
		[H. sapiens]”
742581	0.433453	“Homo sapiens cDNA FLJ10366 fis, clone
		NT2RM2001420”
52103	0.432756	hypothetical protein FLJ23045
770675	0.4319407	“Homo sapiens cDNA: FLJ21323 fis, clone COL02374”
756373	0.4310628	Rho guanine exchange factor (GEF) 16
43977	0.4309655	KIAA0182 protein
2322079	0.4309341
25440	0.4304195	“staufen (Drosophila, RNA-binding protein) homolog 2”
207794	0.4297389	“nuclear factor (erythroid-derived 2), 45 kD”
746190	0.4291743	hypothetical protein DKFZp761B1514
74566	0.4279059	“exportin 1 (CRM1, yeast, homolog)”
76196	0.4278385	hypothetical protein FLJ20062
826173	0.4276784	profilin 1
1587863	0.4270229	acetyl-Coenzyme A acyltransferase 1 (peroxisomal 3-
		oxoacyl-Coenzyme A thiolase)
2017721	0.4268089	“ESTs, Weakly similar to 2109260A B cell growth factor
		[H. sapiens]”
809464	0.426456	“fibroblast growth factor receptor 2 (bacteria-expressed
		kinase, keratinocyte growth factor receptor, craniofacial
		dysostosis 1, Crouzon syndrome, Pfeiffer syndrome,
		Jackson-Weiss syndrome)”
41826	0.4264531	ESTs
1687976	0.4257058	“endoplasmic reticulum chaperone SIL1, homolog of yeast”
416436	0.4252319	mitochondrial ribosomal protein L24
145491	0.4250102	protocadherin 1 (cadherin-like 1)
810316	0.4245985	very long-chain acyl-CoA synthetase; lipidosin
629944	0.4242364	myosin VB
1637302	0.424164	DNAJ domain-containing
754625	0.4236648	“ATPase, Class II, type 9A”
298417	0.4235025	trefoil factor 3 (intestinal)
47853	0.4231314	“aldehyde dehydrogenase 4 family, member A1”
809727	0.4224266	unc-51 (C. elegans)-like kinase 1
774502	0.4222849	“protein tyrosine phosphatase, non-receptor type 12”
785840	0.4219115	“SEC24 (S. cerevisiae) related gene family, member D”
823907	0.4218216	hypothetical protein FLJ10511
1679942	0.4215618	KIAA1053 protein
823909	0.4215098
1600239	0.421459	HSPC037 protein
85195	0.4207753	“growth arrest and DNA-damage-inducible, gamma”
1640282	0.4205899	KIAA1240 protein
782503	0.4205398	fatty acid desaturase 1
266312	0.4201146	“ATPase, Cu++ transporting, beta polypeptide (Wilson
		disease)”
884511	0.4199518	cytochrome c oxidase subunit VIIb
2051697	0.4197703	“inhibitor of kappa light polypeptide gene enhancer in B-
		cells, kinase beta”
724888	0.4196322	“cytochrome P450, subfamily IVB, polypeptide 1”
809507	0.4189998	hypothetical protein FLJ20568
151449	0.4189856	“protein tyrosine phosphatase, non-receptor type 21”
743860	0.4189656	“hypothetical protein, clone 2746033”
345833	0.4187433	heterogeneous nuclear ribonucleoprotein A/B
259950	0.4187278	hypothetical protein FLJ14991
283751	0.4179154	cortistatin
810875	0.4176896	“solute carrier family 26, member 6”
26883	0.4176151	“protein kinase (cAMP-dependent, catalytic) inhibitor beta”
38356	0.4173012	“cytochrome P450, subfamily 46 (cholesterol 24-
		hydroxylase)”
35191	0.4165847	stromal cell-derived factor 2
75859	−2.4150177	N-myc downstream-regulated gene 2
1569187	−1.9090486	heparan sulfate (glucosamine) 3-O-sulfotransferase 4
345670	−1.889471	“ESTs, Moderately similar to I59348 CCAAT binding
		transcription factor CBF subunit C - rat [R. norvegicus]”
760299	−1.8654555	dickkopf (Xenopus laevis) homolog 3
753071	−1.8417236	“Homo sapiens cDNA: FLJ22528 fis, clone HRC12825”
344720	−1.7951928	glycophorin C (Gerbich blood group)
810002	−1.7256692	“Homo sapiens, clone MGC: 19762 IMAGE: 3636045,
		mRNA, complete cds”
200814	−1.7140538	“membrane metallo-endopeptidase (neutral endopeptidase,
		enkephalinase, CALLA, CD10)”
131839	−1.7087069	folate receptor 1 (adult)
300632	−1.6969092	hypothetical protein FLJ21044 similar to Rbig1
811920	−1.6924158	“interleukin 11 receptor, alpha”
486683	−1.6799604	Homo sapiens mRNA; cDNA DKFZp564J0323 (from clone
		DKFZp564J0323)
1558675	−1.6577507	SRY (sex determining region Y)-box 10
840266	−1.6530726	“Homo sapiens cDNA: FLJ22667 fis, clone HSI08385”
285377	−1.6514168	pellino (Drosophila) homolog 2
1469377	−1.6473741	lipoma HMGIC fusion partner-like 2
45099	−1.6325981	regucalcin (senescence marker protein-30)
1161564	−1.5917197	desmuslin
298122	−1.5678888	frizzled (Drosophila) homolog 7
796542	−1.5553964	ets variant gene 5 (ets-related molecule)
289760	−1.5534789	“ESTs, Highly similar to T00391 hypothetical protein
		KIAA0612 [H. sapiens]”
22917	−1.5156635	Homo sapiens mRNA; cDNA DKFZp761M0111 (from clone
		DKFZp761M0111)
838478	−1.5059801	neurocalcin delta
788234	−1.4824055	“inhibitor of DNA binding 4, dominant negative helix-loop-
		helix protein”
377461	−1.4787671	“caveolin 1, caveolae protein, 22 kD”
67741	−1.4786722	PP2135 protein
839736	−1.4745405	“crystallin, alpha B”
712139	−1.4736508	ADP-ribosylation factor-like 7
160192	−1.4695435	“ESTs, Weakly similar to 2004399A chromosomal protein
		[H. sapiens]”
742685	−1.4440371	disabled (Drosophila) homolog 2 (mitogen-responsive
		phosphoprotein)
1556433	−1.4191955	GRO3 oncogene
1554167	−1.4126653	hypothetical protein FLJ14529
877621	−1.3987023	nGAP-like protein
1882697	−1.3873266	peanut (Drosophila)-like 2
72778	−1.3873177	“caspase 7, apoptosis-related cysteine protease”
666879	−1.3624072	annexin A8
69002	−1.3581187	PPAR(gamma) angiopoietin related protein
811848	−1.3549757	hypothetical protein
490023	−1.3516302	hypothetical protein MGC2648
781017	−1.3232108	early growth response 2 (Krox-20 (Drosophila) homolog)
767202	−1.3217103	latent transforming growth factor beta binding protein 2
291478	−1.3155899	runt-related transcription factor 3
757191	−1.2902603	ESTs
130201	−1.2885369	intercellular adhesion molecule 2
1635320	−1.2878152	“amiloride-sensitive cation channel 2, neuronal”
140574	−1.2754214	“small inducible cytokine subfamily D (Cys-X3-Cys),
		member 1 (fractalkine, neurotactin)”
416676	−1.2751042	pellino (Drosophila) homolog 1
814798	−1.2748689	“aldehyde dehydrogenase 1 family, member A3”
611532	−1.273871	“troponin I, skeletal, fast”
2056139	−1.2697411	LIM domain protein
377275	−1.2665702	ataxia-telangiectasia group D-associated protein
303109	−1.2557454	purinergic receptor (family A group 5)
813265	−1.2549431	Homo sapiens mRNA; cDNA DKFZp564H1916 (from clone
		DKFZp564H1916)
878836	−1.2507242	“secretory granule, neuroendocrine protein 1 (7B2 protein)”
1473471	−1.2409979	KIAA0194 protein
529843	−1.2405917	“ESTs, Moderately similar to JC5238 galactosylceramide-
		like protein, GCP [H. sapiens]”
505864	−1.2393277	RalGDS-like gene
781014	−1.2359239	suppression of tumorigenicity 5
470393	−1.2354879	“matrix metalloproteinase 7 (matrilysin, uterine)”
290378	−1.2346086	podocalyxin-like
196435	−1.2282733	ESTs
71087	−1.2181178	“v-maf musculoaponeurotic fibrosarcoma (avian) oncogene
		family, protein F”
34093	−1.2156885	EST
76182	−1.2102812	hypothetical protein DKFZp761F241
884462	−1.2078038	Down syndrome critical region gene 1
277571	−1.2030738	KIAA1706 protein
841308	−1.200964	“myosin, light polypeptide kinase”
162308	−1.2006293	ESTs
52419	−1.2004086	Friedreich ataxia region gene X123
488404	−1.1981268	Homo sapiens clone TUA8 Cri-du-chat region mRNA
712401	−1.193113	“phosphoinositide-3-kinase, catalytic, delta polypeptide”
289428	−1.1923798	“neurotrophic tyrosine kinase, receptor, type 2”
814443	−1.1905978	hypothetical protein MGC3232
153760	−1.1793765	EphB1
1917449	−1.1785893	“serum amyloid A4, constitutive”
1493218	−1.164886	hypothetical protein FLJ22297
843070	−1.1647509	nucleoporin 88 kD
753038	−1.1629978	kinesin family member C3
811088	−1.1625002	ephrin-B3
2106144	−1.1619925	regulated in glioma
796181	−1.1584587	growth arrest-specific 6
1257131	−1.1566479	ESTs
1473274	−1.1557062	“myosin regulatory light chain 2, smooth muscle isoform”
208718	−1.1498532	annexin A1
811837	−1.1468554	eukaryotic translation elongation factor 1 alpha 1
768571	−1.1461886	SRY (sex determining region Y)-box 8
1474900	−1.1347123	keratin 15
756708	−1.1346161	“potassium intermediate/small conductance calcium-
		activated channel, subfamily N, member 4”
1555924	−1.1342985	CSR1 protein
811837	−1.1269309
1878409	−1.1144369	catechol-O-methyltransferase
786069	−1.1143906	beta-site APP-cleaving enzyme
815737	−1.1116223	“ATP synthase, H+ transporting, mitochondrial F1 complex,
		alpha subunit, isoform 1, cardiac muscle”
132857	−1.0989746	Homo sapiens mRNA; cDNA DKFZp586N1323 (from clone
		DKFZp586N1323)
1871116	−1.0975491	Homo sapiens mRNA; cDNA DKFZp434C1714 (from clone
		DKFZp434C1714); partial cds
133236	−1.0945253	“RNA binding motif protein, X chromosome”
283023	−1.0825166	chemokine (C—X3—C) receptor 1
2016775	−1.0761731	“G protein-coupled receptor, family C, group 5, member B”
897963	−1.0751021	phosphatidic acid phosphatase type 2A
814316	−1.0654718	ribosomal protein L13
47043	−1.0559861	tensin
625399	−1.0523138	hypothetical protein similar to beta-transducin family
416959	−1.051868	nuclear factor I/B
366100	−1.0467604	matrilin 2
753162	−1.0416438	KIAA0603 gene product
491403	−1.0411657	“tumor necrosis factor receptor superfamily, member 1B”
813256	−1.0407652	“ATP-binding cassette, sub-family B (MDR/TAP), member
		1”
740620	−1.0395569	tropomyosin 2 (beta)
1577736	−1.035115	epidermal growth factor (beta-urogastrone)
70245	−1.0348655	Homo sapiens mRNA full length insert cDNA clone
		EUROIMAGE 50374
1626996	−1.0328113	c-fos induced growth factor (vascular endothelial growth
		factor D)
360254	−1.0325653	“cysteine-rich, angiogenic inducer 61”
80344	−1.0323882	interleukin 7 receptor
530958	−1.0316423	smoothened (Drosophila) homolog
34150	−1.0302576	ESTs
809784	−1.030253	“kallikrein 6 (neurosin, zyme)”
990881	−1.0289558
416434	−1.0284229	SCN Circadian Oscillatory Protein (SCOP)
162308	−1.023071
796475	−1.0217348	four and a half LIM domains 3
32489	−1.0196444	hypothetical protein DKFZp566A1524
2504881	−1.0194516	signal transducer and activator of transcription 5A
188335	−1.0161259	“egf-like module containing, mucin-like, hormone receptor-
		like sequence 2”
593023	−1.0135883	“dystrobrevin, beta”
139660	−1.0134677	ESTs
772913	−1.0122192	calreticulin
270826	−1.0112851	“Homo sapiens cDNA FLJ13329 fis, clone
		OVARC1001795”
1864302	−1.0099902	E74-like factor 5 (ets domain transcription factor)
1587710	−1.0092611	period (Drosophila) homolog 1
1584540	−1.0077508	Homo sapiens mRNA; cDNA DKFZp586M2022 (from clone
		DKFZp586M2022)
788136	−1.0073983	“phosphodiesterase 4B, cAMP-specific (dunce
		(Drosophila)-homolog phosphodiesterase E4)”
40027	−1.0057005	ESTs
1856063	−1.0036618	tweety (Drosophila) homolog 1
209537	−0.9988461	zinc finger protein 221
628955	−0.997687	forkhead box O1A (rhabdomyosarcoma)
2095066	−0.9972552	“alcohol dehydrogenase 1C (class I), gamma polypeptide”
1636166	−0.9969091	KIAA0668 protein
882248	−0.9965858	transgelin
415816	−0.9954308	ESTs
897731	−0.9927981	latrophilin
868396	−0.9916319	“tyrosine 3-monooxygenase/tryptophan 5-monooxygenase
		activation protein, eta polypeptide”
343760	−0.9907562	SH3 domain binding glutamic acid-rich protein like 2
1572298	−0.9906095	“CD3Z antigen, zeta polypeptide (TiT3 complex)”
1474337	−0.986117	“phosphorylase, glycogen; brain”
1609665	−0.9851713	BarH-like homeobox 2
2243051	−0.9835274	kallikrein 8 (neuropsin/ovasin)
27544	−0.9834143	prominin (mouse)-like 1
281190	−0.9830533	ESTs
161456	−0.9820939	serum amyloid A1
505243	−0.980381	“inositol 1,4,5-triphosphate receptor, type 2”

Example IV

Genes for Discriminating Between Normal and ADH

As shown in Table 3 below, 600 genes were identified as being able to discriminate between normal and ADH.

TABLE 3
CloneID	Weight	Description
1323448	1.3237504	cysteine-rich protein 1 (intestinal)
594500	1.158305	EST
824052	1.034408	chromosome 6 open reading frame 1
149539	0.9878366	KIAA1700
788654	0.9585887	growth factor receptor-bound protein 2
1517749	0.947675	ESTs
1492238	0.9155471	HSPC003 protein
366353	0.9154768	DKFZP564C186 protein
1609836	0.898716	glutamate-ammonia ligase (glutamine synthase)
138189	0.8950816	Wolfram syndrome 1 (wolframin)
344959	0.8945717	gene for serine/threonine protein kinase
1435862	0.8934643	antigen identified by monoclonal antibodies 12E7, F21 and O13
2014373	0.8820247	HNK-1 sulfotransferase
23776	0.879215	quinoid dihydropteridine reductase
293569	0.8708985	chromosome 1 open reading frame 21
130835	0.8659688	Homo sapiens, Similar to clone FLB3816, clone
		IMAGE: 3454380, mRNA
236034	0.8541082	uncoupling protein 2 (mitochondrial, proton carrier)
488025	0.8525751	Kruppel-associated box protein
178805	0.8524069	Human DNA sequence from clone RP5-850E9 on chromosome
		20. Contains part of the gene for a novel C2H2 type zinc finger
		protein similar to Drosophila Scratch (Scrt), Slug and Xenopus
		Snail, a novel gene similar to Drosophila CG6762, STSs, GSSs
		and five CpG
745606	0.8514931	hypothetical protein PP591
1492463	0.8378401	selenoprotein X, 1
530197	0.8206765	ESTs, Moderately similar to ALU8_HUMAN ALU SUBFAMILY
		SX SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
898222	0.8092364	Homo sapiens clone 24418 mRNA sequence
782608	0.8041049	mitochondrial ribosomal protein L9
450301	0.8030667	mutL (E. coli) homolog 3
196189	0.7992668	cytochrome b-5
363144	0.7924672	transcription factor AP-2 beta (activating enhancer-binding
		protein 2 beta)
68636	0.7904354	hypothetical protein MGC2477
795185	0.7765346	xenotropic and polytropic retrovirus receptor
255754	0.7720883	LUNX protein; PLUNC (palate lung and nasal epithelium clone);
		tracheal epithelium enriched protein
767798	0.7682106	ATX1 (antioxidant protein 1, yeast) homolog 1
1558233	0.7654043	ESTs
769600	0.763743	uracil-DNA glycosylase 2
1156538	0.7512287	potassium inwardly-rectifying channel, subfamily J, member 11
1587863	0.7507482	acetyl-Coenzyme A acyltransferase 1 (peroxisomal 3-oxoacyl-
		Coenzyme A thiolase)
1709791	0.740832	BAI1-associated protein 1
741891	0.7360507	RAB2, member RAS oncogene family-like
788654	0.7336359
811774	0.7223819	CGI-49 protein
1738208	0.7166687	a disintegrin-like and metalloprotease (reprolysin type) with
		thrombospondin type 1 motif, 4
120138	0.7096046	J domain containing protein 1
2248488	0.7033736	ems1 sequence (mammary tumor and squamous cell
		carcinoma-associated (p80/85 src substrate)
265103	0.702883	Homo sapiens mRNA; cDNA DKFZp547M123 (from clone
		DKFZp547M123)
2054122	0.698129	solute carrier family 11 (proton-coupled divalent metal ion
		transporters), member 3
701751	0.6961443	cut (Drosophila)-like 1 (CCAAT displacement protein)
811582	0.690137	golgi phosphoprotein 2
266312	0.6856592	ATPase, Cu++ transporting, beta polypeptide (Wilson disease)
35147	0.6842172	ESTs, Weakly similar to unnamed protein product [H. sapiens]
1325816	0.6829962	polymerase (RNA) II (DNA directed) polypeptide L (7.6 kD)
358217	0.6801945	glypican 4
233349	0.6764709	hypothetical protein FLJ10761
741977	0.6758385	B-factor, properdin
145132	0.6725186	mannose-P-dolichol utilization defect 1
33267	0.6679827
279720	0.6607182	ESTs, Moderately similar to A47582 B-cell growth factor
		precursor [H. sapiens]
565319	0.6603668	Homo sapiens mRNA; cDNA DKFZp564B1264 (from clone
		DKFZp564B1264)
771173	0.6594128	mitochondrial ribosomal protein S21
271472	0.6582514	C3HC4-like zinc finger protein
768570	0.6581316	hypothetical protein FLJ11280
744417	0.6563238	carnitine acetyltransferase
826256	0.6554059	transmembrane 7 superfamily member 1 (upregulated in kidney)
2250839	0.654954	androgen receptor (dihydrotestosterone receptor; testicular
		feminization; spinal and bulbar muscular atrophy; Kennedy
		disease)
179212	0.6499845	ESTs, Moderately similar to T12539 hypothetical protein
		DKFZp434J154.1 [H. sapiens]
785701	0.6496359	RAB31, member RAS oncogene family
186768	0.6495706	Homo sapiens, clone IMAGE: 3604869, mRNA
503215	0.6457259	pilin-like transcription factor
37554	0.6440792	hypothetical protein FLJ22353
2710524	0.6399293	nuclear receptor coactivator 3
284261	0.6398576	uncharacterized hematopoietic stem/progenitor cells protein
		MDS030
741769	0.6390692	polymerase (DNA directed), beta
743146	0.6388187	hypothetical protein FLJ23403
814528	0.6329458	Homo sapiens cDNA: FLJ22139 fis, clone HEP20959
742595	0.6324947	cyclin-dependent kinase 5
810063	0.630827	growth factor, erv1 (S. cerevisiae)-like (augmenter of liver
		regeneration)
590310	0.6299822	Homo sapiens mRNA; cDNA DKFZp434E2321 (from clone
		DKFZp434E2321); partial cds
841679	0.6283163	calcium and integrin binding protein (DNA-dependent protein
		kinase interacting protein)
131094	0.6268883	Homo sapiens cDNA: FLJ21587 fis, clone COL06946
788334	0.6264069	mitochondrial ribosomal protein L23
1574058	0.6261947	1-acylglycerol-3-phosphate O-acyltransferase 2
		(lysophosphatidic acid acyltransferase, beta)
731308	0.6259858	citrate synthase
826194	0.6205287	synaptotagmin-like 2
2110511	0.6203153	artemin
811907	0.6180993	hypothetical protein FLJ22056
814350	0.6173648	insulin-degrading enzyme
611443	0.6112713	myoglobin
782608	0.6105794
22778	0.6100322	sulfortranferase family 4A, member 1
128695	0.608873	ESTs, Weakly similar to I38344 titin, cardiac muscle [H. sapiens]
47853	0.6077928	aldehyde dehydrogenase 4 family, member A1
814209	0.6076904	ESTs
590774	0.6071935	mitogen-activated protein kinase 13
969877	0.6064355	synaptosomal-associated protein, 25 kD
1469425	0.6055267	SRY (sex determining region Y)-box 22
301122	0.6041028	extracellular matrix protein 1
199403	0.6027193	lectin, galactoside-binding, soluble, 8 (galectin 8)
813845	0.6018909	RNA, U transporter 1
810331	0.6014164	quiescin Q6
770766	0.600234	DKFZP564C1940 protein
279970	0.5992634	adenosine A2a receptor
490778	0.5957445	low molecular mass ubiquinone-binding protein (9.5 kD)
288999	0.5955672	small protein effector 1 of Cdc42
504959	0.5953946	Homo sapiens mRNA; cDNA DKFZp586G0321 (from clone
		DKFZp586G0321)
42408	0.5930231	hypothetical protein MGC4604
263727	0.5926363	DNA segment, single copy probe LNS-CAI/LNS-CAII (deleted in
		polyposis
854763	0.5918867	Homo sapiens cDNA FLJ11341 fis, clone PLACE1010786
729975	0.5908615	meningioma expressed antigen 5 (hyaluronidase)
1733262	0.5891897	BLu protein
730313	0.5887579	ESTs, Weakly similar to A43932 mucin 2 precursor, intestinal
		[H. sapiens]
1500000	0.5871787	H2B histone family, member B
595037	0.5870709	retinoic acid induced 3
1635681	0.5859113	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 2
		(8 kD, B8)
2325804	0.5840656	95 kDa retinoblastoma protein binding protein
2014856	0.5837779	major histocompatibility complex, class I-like sequence
40173	0.5771304	KIAA0807 protein
796723	0.576028	Homo sapiens clone CDABP0014 mRNA sequence
239568	0.5750382	annexin A9
2018527	0.5732092	dolichyl-phosphate mannosyltransferase polypeptide 3
1649374	0.5731982	homogentisate 1,2-dioxygenase (homogentisate oxidase)
809357	0.571929	Bernardinelli-Seip congenital lipodystrophy 2 (seipin)
366132	0.5711651	succinate dehydrogenase complex, subunit C, integral
		membrane protein, 15 kD
83358	0.5709886	ESTs
1762111	0.5703701	natriuretic peptide receptor C/guanylate cyclase C
		(atrionatriuretic peptide receptor C)
244801	0.5693836	Rho guanine exchange factor (GEF) 11
127646	0.5663395
39884	0.5659552	IMP (inosine monophosphate) dehydrogenase 1
202577	0.5629317	histamine N-methyltransferase
588262	0.5614929	Homo sapiens, Similar to RIKEN cDNA 2600001A11 gene,
		clone MGC: 9907 IMAGE: 3870073, mRNA, complete cds
813419	0.5602324	hydroxyacyl-Coenzyme A dehydrogenase, type II
1911343	0.559091	RAB26, member RAS oncogene family
859761	0.5582503	poliovirus receptor-related 2 (herpesvirus entry mediator B)
342181	0.557997	B-cell CLL/lymphoma 2
1558108	0.5577768	ATP-binding cassette, sub-family C (CFTR/MRP), member 8
2017403	0.5568495	regulator of G-protein signalling 3
122394	0.5554851	guanine nucleotide binding protein (G protein), alpha 15 (Gq
		class)
824879	0.5548666	hypothetical protein MGC11275
1708055	0.554593	glioblastoma overexpressed
1456701	0.5545861	B-cell CLL/lymphoma 9
186301	0.5537115	Homo sapiens cDNA FLJ12924 fis, clone NT2RP2004709
126851	0.5535041	hypothetical protein FLJ11160
826622	0.5532463	KIAA0430 gene product
151449	0.5503739	protein tyrosine phosphatase, non-receptor type 21
826668	0.550158	KIAA0274 gene product
76605	0.5482232	nesca protein
786072	0.5450231	myosin IC
2244196	0.5432772	B-cell receptor-associated protein BAP29
704414	0.5431136	small nuclear ribonucleoprotein polypeptides B and B1
739578	0.5402953	GPI-anchored metastasis-associated protein homolog
1404774	0.5399447	parathyroid hormone-like hormone
66599	0.5399379	N-acetyltransferase 1 (arylamine N-acetyltransferase)
359250	0.5382989	carbonic anhydrase IV
488202	0.5378254	ESTs, Weakly similar to YZ28_HUMAN HYPOTHETICAL
		PROTEIN ZAP128 [H. sapiens]
235986	0.5371486	wingless-type MMTV integration site family, member 11
214068	0.5357344	GATA-binding protein 3
1500542	0.5341753	regulator of G-protein signalling 11
470092	0.5319336	like-glycosyltransferase
589115	0.531314	matrix metalloproteinase 1 (interstitial collagenase)
810734	0.5308572	polymerase (DNA-directed), delta 4
685516	0.5304998	putative G protein-coupled receptor
171912	0.5297738	Homo sapiens cDNA FLJ10960 fis, clone PLACE1000564
1858892	0.5295858	hypothetical protein MGC4825
414992	0.5293379	K562 cell-derived leucine-zipper-like protein 1
37708	0.5283276	hypothetical protein MGC3101
713782	0.5273402	a disintegrin and metalloproteinase domain 15 (metargidin)
471568	0.5255851	hematological and neurological expressed 1
812238	0.5237287	hypothetical protein MGC4692
1631735	0.5228778	Homo sapiens, clone IMAGE: 3604336, mRNA, partial cds
74070	0.5225238	endosulfine alpha
782497	0.5218113	Homo sapiens, clone IMAGE: 3010666, mRNA, partial cds
502774	0.5204735	hypothetical protein FLJ20623
1517171	0.5204242	interleukin 2 receptor, alpha
50562	0.5195335	chromosome 8 open reading frame 4
60565	0.5192032	lethal giant larvae (Drosophila) homolog 2
1641894	0.5187462	EST
51083	0.5170561	catenin (cadherin-associated protein), delta 2 (neural
		plakophilin-related arm-repeat protein)
296702	0.5164562	deiodinase, iodothyronine, type I
2018337	0.5163293	glucosidase, beta; acid (includes glucosylceramidase)
1605426	0.5150013	hypothetical protein FLJ13352
1474149	0.5138729	poliovirus receptor-related 1 (herpesvirus entry mediator C;
		nectin)
26294	0.5137265	RNB6
810017	0.5135433	plasminogen activator, urokinase receptor
825822	0.5134094	hypothetical protein
810725	0.51329	ATPase, H+ transporting, lysosomal (vacuolar proton pump)
		21 kD
781019	0.5132896	paraoxonase 2
726658	0.5132765	non-metastatic cells 3, protein expressed in
1916575	0.5127478	BCL2-interacting killer (apoptosis-inducing)
1469148	0.5125351	FGFR1 oncogene partner
726703	0.5118991	Homo sapiens clone 23736 mRNA sequence
725978	0.5108817	ESTs, Moderately similar to ALU7_HUMAN ALU SUBFAMILY
		SQ SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
1573946	0.509585	programmed cell death 9
51741	0.5094912	GTP-binding protein
156363	0.5086284	hypothetical protein FLJ12934
177827	0.5085582	synaptotagmin VII
294397	0.505999	DKFZP586A0522 protein
826077	0.503983	pyruvate dehydrogenase (lipoamide) beta
949938	0.5011384	cystatin C (amyloid angiopathy and cerebral hemorrhage)
1957136	0.5006732	phenylethanolamine N-methyltransferase
2018084	0.4999242	Ste-20 related kinase
784140	0.4984039	WD repeat domain 15
810981	0.498146	hypothetical protein FLJ20699
627248	0.4972176	SBBI31 protein
2302099	0.4967769	sialidase 3 (membrane sialidase)
302031	0.49677	Ste20-related serine/threonine kinase
183440	0.4967506	arylsulfatase A
1609748	0.4955206	hypothetical protein MGC10882
183200	0.4955056	fumarylacetoacetate hydrolase (fumarylacetoacetase)
2306697	0.4953741	neuromedin B
292770	0.4944242	Homo sapiens, clone IMAGE: 3627860, mRNA, partial cds
856447	0.494183	interferon, gamma-inducible protein 30
855563	0.4941473	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 3
839081	0.4939384	homolog of yeast long chain polyunsaturated fatty acid
		elongation enzyme 2
49273	0.4937997	solute carrier family 27 (fatty acid transporter), member 4
289505	0.4933344	ESTs, Moderately similar to S65657 alpha-1C-adrenergic
		receptor splice form 2 [H. sapiens]
782689	0.4930071	solute carrier family 6 (neurotransmitter transporter, creatine),
		member 8
767495	0.4922026	GLI-Kruppel family member GLI3 (Greig cephalopolysyndactyly
		syndrome)
782537	0.490998	Homo sapiens cDNA: FLJ22562 fis, clone HSI01814
855029	0.4904632	Ac-like transposable element
705274	0.4904221	diacylglycerol kinase, delta (130 kD)
202514	0.4902228	DNA (cytosine-5-)-methyltransferase 3 alpha
725649	0.4878638	nuclear factor of activated T-cells, cytoplasmic, calcineurin-
		dependent 4
1884404	0.4878341	KIAA0285 gene product
825296	0.4858551	low density lipoprotein receptor defect C complementing
839580	0.4826315	ESTs
289857	0.4823282	phenylethanolamine N-methyltransferase
491465	0.4821169	hypothetical protein FLJ10035
360778	0.4820033
261472	0.4814013	putative nuclear protein ORF1-FL49
840768	0.4812559	ATPase, H+ transporting, lysosomal (vacuolar proton pump)
		16 kD
123614	0.4800042	hypothetical protein MGC4675
1603583	0.4785029	SH3 domain binding glutamic acid-rich protein like
782688	0.4780253	dynein, axonemal, light intermediate polypeptide
784150	0.4763599	RAB31, member RAS oncogene family
770869	0.4762758	hypothetical protein MGC2592
455269	0.4761389
365358	0.4756564	pM5 protein
795256	0.4753832	NPD007 protein
756666	0.474441	protein phosphatase 1, catalytic subunit, alpha isoform
767706	0.4731085	ESTs
488505	0.4727394	accessory proteins BAP31/BAP29
344073	0.4726399	ESTs, Weakly similar to K1CI_HUMAN KERATIN, TYPE I
		CYTOSKELETAL 9 [H. sapiens]
1558151	0.4723511	basic leucine zipper transcription factor, ATF-like
823615	0.471739	Homo sapiens cDNA: FLJ21245 fis, clone COL01184
49351	0.4697521	SEX gene
1541711	0.4694413	Homo sapiens cDNA: FLJ21513 fis, clone COL05778
868652	0.4682053	complement component 4B
430318	0.4681908	parvalbumin
143426	0.4679928	ras homolog gene family, member B
951125	0.4675003	peroxisomal D3,D2-enoyl-CoA isomerase
66535	0.466705	ornithine decarboxylase antizyme 2
813281	0.4659334	WW domain-containing protein 1
726699	0.4658249	ESTs, Weakly similar to AAB47496 NG5 [H. sapiens]
1492468	0.4643107	DEME-6 protein
1492426	0.4635224	chromosome 19 open reading frame 3
489106	0.4628623	hypothetical protein FLJ11210
488422	0.4626549	high-mobility group 20B
278430	0.4612914	kinesin family member 5C
1518890	0.4610867	metallothionein-like 5, testis-specific (tesmin)
2017756	0.4608709	homolog of yeast MOG1
813631	0.4607567	seven transmembrane protein TM7SF3
1557637	0.4588694	ESTs
298417	0.4587501	trefoil factor 3 (intestinal)
810402	0.4583168	hypothetical protein
767761	0.4565666	DKFZP434B168 protein
1473289	0.4540707	protective protein for beta-galactosidase (galactosialidosis)
773142	0.4530754	hypothetical protein MGC2827
1652310	0.4525789	Homo sapiens, clone MGC: 19613 IMAGE: 3833049, mRNA,
		complete cds
812143	0.4519186	fibronectin leucine rich transmembrane protein 3
2326057	0.4506179	MLN51 protein
1075635	0.4502629	MLSN1- and TRP-related
825327	0.4497029	Homo sapiens cDNA FLJ14105 fis, clone MAMMA1001202
809838	0.4466933
786545	0.4453714	protein phosphatase 1, regulatory (inhibitor) subunit 3B
183556	0.4452493	gap junction protein, alpha 4, 37 kD (connexin 37)
503889	0.4433034	hypothetical protein FLJ10656
725321	0.44288	estrogen receptor 1
731459	0.4427978	Homo sapiens cDNA: FLJ22296 fis, clone HRC04468
752631	0.4426961	fibroblast growth factor receptor 3 (achondroplasia,
		thanatophoric dwarfism)
1558642	0.4426424	hypothetical protein MGC2771
120271	0.4425879	hypothetical protein MGC4692
487932	0.4419815	synaptotagmin-like 2
1592715	0.4417898	Homer, neuronal immediate early gene, 3
308466	0.4417728	GTP-binding protein Sara
840882	0.441569	nucleotide binding protein
823727	0.4406546	Homo sapiens, clone IMAGE: 2905978, mRNA, partial cds
1636092	0.4404649	hypothetical protein FLJ20657
1505038	0.43988	hypothetical protein FLJ20171
490965	0.4389746	ESTs
346696	0.437234	TEA domain family member 4
345032	0.4360992	ESTs
487733	0.4356439
810612	0.4352602	S100 calcium-binding protein A11 (calgizzarin)
122077	0.434495	putative membrane protein
417801	0.4325892	mitochondrial ribosomal protein L27
878406	0.4311455	metaxin 1
1947381	0.4311314	hypothetical protein FLJ22329
232789	0.4292025	polymerase (RNA) II (DNA directed) polypeptide J (13.3 kD)
809944	0.4291762	KIAA0310 gene product
2019101	0.4289318	angiotensinogen (serine (or cysteine) proteinase inhibitor, clade
		A (alpha-1 antiproteinase, antitrypsin), member 8)
1656062	0.4288838	coagulation factor XII (Hageman factor)
1390584	0.4284863	mitochondrial intermediate peptidase
1693357	0.4274493	endothelin 2
75859	−1.6337267	N-myc downstream-regulated gene 2
1558675	−1.4515145	SRY (sex determining region Y)-box 10
753071	−1.4473398	Homo sapiens cDNA: FLJ22528 fis, clone HRC12825
810002	−1.2720931	Homo sapiens, clone MGC: 19762 IMAGE: 3636045, mRNA,
		complete cds
712139	−1.2371074	ADP-ribosylation factor-like 7
815737	−1.1857965	ATP synthase, H+ transporting, mitochondrial F1 complex, alpha
		subunit, isoform 1, cardiac muscle
503671	−1.1528584	Homo sapiens cDNA FLJ14368 fis, clone HEMBA1001122
345670	−1.135654	ESTs, Moderately similar to I59348 CCAAT binding transcription
		factor CBF subunit C - rat [R. norvegicus]
753038	−1.1168529	kinesin family member C3
741139	−1.1025542	eyes absent (Drosophila) homolog 2
839736	−1.1019142	crystallin, alpha B
2013178	−1.0884449	death associated transcription factor 1
1577736	−1.076549	epidermal growth factor (beta-urogastrone)
788234	−1.0610946	inhibitor of DNA binding 4, dominant negative helix-loop-helix
		protein
150897	−1.0221539	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 3
757873	−1.0188169	cyclin-dependent kinase 5, regulatory subunit 1 (p35)
291478	−1.0093382	runt-related transcription factor 3
486683	−1.0075654	Homo sapiens mRNA; cDNA DKFZp564J0323 (from clone
		DKFZp564J0323)
290378	−1.0043647	podocalyxin-like
772913	−0.9823487	calreticulin
544639	−0.9767278	ESTs
814798	−0.9611553	aldehyde dehydrogenase 1 family, member A3
131839	−0.959265	folate receptor 1 (adult)
840266	−0.9425178	Homo sapiens cDNA: FLJ22667 fis, clone HSI08385
1555924	−0.9421074	CSR1 protein
756708	−0.9396531	potassium intermediate/small conductance calcium-activated
		channel, subfamily N, member 4
838478	−0.934433	neurocalcin delta
742562	−0.9269494	chromosome 16 open reading frame 5
1469377	−0.9086679	lipoma HMGIC fusion partner-like 2
884462	−0.9065675	Down syndrome critical region gene 1
796542	−0.9052403	ets variant gene 5 (ets-related molecule)
32493	−0.9043423	integrin, alpha 6
284592	−0.9019931	PRO1659 protein
788136	−0.8998648	phosphodiesterase 4B, cAMP-specific (dunce (Drosophila)-
		homolog phosphodiesterase E4)
1161564	−0.8865787	desmuslin
1635320	−0.8845852	amiloride-sensitive cation channel 2, neuronal
344720	−0.8822302	glycophorin C (Gerbich blood group)
1534700	−0.8804685	KIAA0830 protein
193913	−0.8724313	v-yes-1 Yamaguchi sarcoma viral related oncogene homolog
71087	−0.870641	v-maf musculoaponeurotic fibrosarcoma (avian) oncogene
		family, protein F
300632	−0.8586688	hypothetical protein FLJ21044 similar to Rbig1
416676	−0.8568853	pellino (Drosophila) homolog 1
69002	−0.8528453	PPAR(gamma) angiopoietin related protein
742685	−0.852598	disabled (Drosophila) homolog 2 (mitogen-responsive
		phosphoprotein)
140574	−0.8498606	small inducible cytokine subfamily D (Cys-X3-Cys), member 1
		(fractalkine, neurotactin)
23831	−0.8493217	aldolase C, fructose-bisphosphate
470393	−0.848482	matrix metalloproteinase 7 (matrilysin, uterine)
1474337	−0.844539	phosphorylase, glycogen; brain
753301	−0.8393651	carcinoembryonic antigen-related cell adhesion molecule 1
		(biliary glycoprotein)
51078	−0.8348835	ribosomal protein L44
3172883	−0.8293392	ESTs, Weakly similar to 1709359A dopamine D4 receptor
		[H. sapiens]
877621	−0.8289253	nGAP-like protein
811920	−0.8286379	interleukin 11 receptor, alpha
156211	−0.8269263	ATPase, H+ transporting, lysosomal (vacuolar proton pump),
		beta polypeptide, 56/58 kD, isoform 1 (Renal tubular acidosis
		with deafness)
760299	−0.8251086	dickkopf (Xenopus laevis) homolog 3
285377	−0.8214706	pellino (Drosophila) homolog 2
345034	−0.8161772	small inducible cytokine subfamily B (Cys-X-Cys), member 14
		(BRAK)
298122	−0.8158372	frizzled (Drosophila) homolog 7
842896	−0.8123068	hypothetical protein DKFZp762L0311
843070	−0.8071984	nucleoporin 88 kD
1257131	−0.8069059	ESTs
796539	−0.803124	KRAB-associated protein 1
139660	−0.79833	ESTs
666879	−0.7950485	annexin A8
200814	−0.7920988	membrane metallo-endopeptidase (neutral endopeptidase,
		enkephalinase, CALLA, CD10)
2016775	−0.7914834	G protein-coupled receptor, family C, group 5, member B
1946448	−0.790849	caveolin 2
1473471	−0.7906678	KIAA0194 protein
1556433	−0.7877792	GRO3 oncogene
1636156	−0.7827089	hypothetical protein FLJ21709
40299	−0.78007	growth differentiation factor 10
1636166	−0.7788972	KIAA0668 protein
1609665	−0.7765472	BarH-like homeobox 2
250797	−0.7739669	hypothetical protein FLJ20038
220395	−0.7687195	hypothetical protein FLJ23293 similar to ARL-6 interacting
		protein-2
208718	−0.7660278	annexin A1
41869	−0.7646494	hypothetical protein FLJ11017
490023	−0.7621736	hypothetical protein MGC2648
1607229	−0.7562938	tumor protein D52-like 1
133236	−0.7561129	RNA binding motif protein, X chromosome
785733	−0.7554682	hypothetical protein FLJ12892
32489	−0.7521767	hypothetical protein DKFZp566A1524
70201	−0.7513314	mitochondrial solute carrier
611481	−0.7507264	HMG-box transcription factor TCF-3
1554167	−0.7503289	hypothetical protein FLJ14529
768571	−0.7476813	SRY (sex determining region Y)-box 8
783698	−0.7411614	lipin 1
341759	−0.7393558	lung type-I cell membrane-associated glycoprotein
665384	−0.7388404	KIAA1609 protein
142259	−0.7380151	tumor necrosis factor alpha-inducible cellular protein containing
		leucine zipper domains; Huntingtin interacting protein L;
		transcrption factor IIIA-interacting protein
810057	−0.7363941	vasoactive intestinal peptide receptor 1
27544	−0.7342174	prominin (mouse)-like 1
739193	−0.7338774	cellular retinoic acid-binding protein 1
813256	−0.7334866	ATP-binding cassette, sub-family B (MDR/TAP), member 1
293964	−0.7275302	butyrophilin, subfamily 3, member A1
272706	−0.7274769	alpha2,3-sialyltransferase
209537	−0.7245778	zinc finger protein 221
67741	−0.7229251	PP2135 protein
823714	−0.7215045	nuclear receptor co-repressor/HDAC3 complex subunit
471196	−0.7192752	integral membrane protein 3
813265	−0.7192289	Homo sapiens mRNA; cDNA DKFZp564H1916 (from clone
		DKFZp564H1916)
42681	−0.718704	NY-REN-25 antigen
1601845	−0.7178673	Ca2+-promoted Ras inactivator
725152	−0.7173869	hypothetical protein DKFZp762A227
22917	−0.7173328	Homo sapiens mRNA; cDNA DKFZp761M0111 (from clone
		DKFZp761M0111)
703541	−0.7118124	KIAA1858 protein
529843	−0.7117107	ESTs, Moderately similar to JC5238 galactosylceramide-like
		protein, GCP [H. sapiens]
377461	−0.7093974	caveolin 1, caveolae protein, 22 kD
1569187	−0.7091259	heparan sulfate (glucosamine) 3-O-sulfotransferase 4
1456118	−0.7074166	proteasome (prosome, macropain) subunit, beta type, 9 (large
		multifunctional protease 2)
289760	−0.7058375	ESTs, Highly similar to T00391 hypothetical protein KIAA0612
		[H. sapiens]
341774	−0.7044768	major histocompatibility complex, class I, A
75078	−0.7028415	ESTs
505864	−0.7020337	RalGDS-like gene
415191	−0.700303	KIAA0161 gene product
188335	−0.7002579	egf-like module containing, mucin-like, hormone receptor-like
		sequence 2
132711	−0.6985643	Kruppel-like factor 5 (intestinal)
1864302	−0.6943806	E74-like factor 5 (ets domain transcription factor)
344854	−0.692296	ankyrin repeat domain 3
454970	−0.6853932	DKFZP434G032 protein
79629	−0.6849525
767068	−0.6819032	DKFZP586G1517 protein
378813	−0.679848	secretory leukocyte protease inhibitor (antileukoproteinase)
725076	−0.6798005	5′-nucleotidase (purine), cytosolic type B
491403	−0.6760814	tumor necrosis factor receptor superfamily, member 1B
43764	−0.6743049	hypothetical protein FLJ14033 similar to hypoxia inducible factor
		3, alpha subunit
725622	−0.6731681	ESTs
431231	−0.6692022	EGF-containing fibulin-like extracellular matrix protein 2
488956	−0.6682156	CUG triplet repeat, RNA-binding protein 2
72778	−0.6614808	caspase 7, apoptosis-related cysteine protease
360254	−0.6612871	cysteine-rich, angiogenic inducer, 61
76182	−0.6603322	hypothetical protein DKFZp761F241
773487	−0.6598647	hypothetical protein MGC3032
162308	−0.6580605	ESTs
283023	−0.6577611	chemokine (C-X3-C) receptor 1
196992	−0.6573113	aldo-keto reductase family 1, member C1 (dihydrodiol
		dehydrogenase 1; 20-alpha (3-alpha)-hydroxysteroid
		dehydrogenase)
303109	−0.6571713	purinergic receptor (family A group 5)
897731	−0.6548064	latrophilin
289428	−0.6542789	neurotrophic tyrosine kinase, receptor, type 2
196435	−0.653913	ESTs
504791	−0.6537859	glutathione S-transferase A4
812975	−0.6527728	KIAA0172 protein
488404	−0.6521658	Homo sapiens clone TUA8 Cri-du-chat region mRNA
345056	−0.6490368	KIAA1404 protein
786069	−0.6484842	beta-site APP-cleaving enzyme
48518	−0.6455041	ATP-binding cassette, sub-family A (ABC1), member 5
812048	−0.6438062	prion protein (p27-30) (Creutzfeld-Jakob disease, Gerstmann-
		Strausler-Scheinker syndrome, fatal familial insomnia)
868396	−0.6426678	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase
		activation protein, eta polypeptide
70245	−0.6422928	Homo sapiens mRNA full length insert cDNA clone
		EUROIMAGE 50374
40027	−0.6418674	ESTs
840944	−0.6399619	early growth response 1
809784	−0.6348991	kallikrein 6 (neurosin, zyme)
1881774	−0.6332545	KIAA1678
52419	−0.6326767	Friedreich ataxia region gene X123
120106	−0.631375	caspase 1, apoptosis-related cysteine protease (interleukin 1,
		beta, convertase)
725680	−0.6295778	transcription factor AP-2 gamma (activating enhancer-binding
		protein 2 gamma)
1493218	−0.6292715	hypothetical protein FLJ22297
2018423	−0.6275903	death-associated protein kinase 2
1486082	−0.6241275	heparin-binding growth factor binding protein
868169	−0.6224058	lipoprotein lipase
209137	−0.6161588	gamma-aminobutyric acid (GABA) A receptor, epsilon
248886	−0.6161134	rab3 GTPase-activating protein, non-catalytic subunit (150 kD)
73252	−0.6115602	3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 (soluble)
612274	−0.6108452	tubulin, alpha 1 (testis specific)
346545	−0.6098367	laminin, beta 1
84464	−0.6091345	hypothetical protein FLJ12806
628955	−0.6088522	forkhead box O1A (rhabdomyosarcoma)
490414	−0.6078858	chromosome 2 open reading frame 2
752837	−0.6056177	Homo sapiens mRNA for FLJ00074 protein, partial cds
796904	−0.604755	pleiomorphic adenoma gene-like 1
418159	−0.6038708	synaptogyrin 1
323238	−0.6032171	GRO1 oncogene (melanoma growth stimulating activity, alpha)
1570427	−0.601608	hypothetical protein MGC4309
1500815	−0.6008126	Homo sapiens cDNA: FLJ22130 fis, clone HEP19632
416959	−0.5999728	nuclear factor I/B
782460	−0.5988226	Homo sapiens cDNA FLJ10500 fis, clone NT2RP2000369
824602	−0.5965816	interferon, gamma-inducible protein 16
878798	−0.5956349	beta-2-microglobulin
32299	−0.5945347	inositol(myo)-1(or 4)-monophosphatase 2
277571	−0.59335	KIAA1706 protein
703964	−0.5918604	inositol polyphosphate phosphatase-like 1
796498	−0.5900328	hypothetical protein FLJ14007
504927	−0.5894078	epithelial protein up-regulated in carcinoma, membrane
		associated protein 17
813520	−0.5889772	EphB3
341763	−0.5868818	caspase 5, apoptosis-related cysteine protease
1856063	−0.5866417	tweety (Drosophila) homolog 1
825356	−0.5850287	Homo sapiens cDNA FLJ11997 fis, clone HEMBB1001458
745011	−0.5836864	Homo sapiens mRNA for KIAA1750 protein, partial cds
812256	−0.5832398	Homo sapiens cDNA: FLJ21693 fis, clone COL09609
2017960	−0.5822336	PP1201 protein
713129	−0.5822078	granzyme A (granzyme 1, cytotoxic T-lymphocyte-associated
		serine esterase 3)
815142	−0.5782827	spastic ataxia of Charlevoix-Saguenay (sacsin)
80727	−0.5766546	receptor tyrosine kinase-like orphan receptor 1
45099	−0.5753698	regucalcin (senescence marker protein-30)
415816	−0.5750184	ESTs
306798	−0.5742664	NGFI-A binding protein 1 (EGR1 binding protein 1)
563634	−0.5737239	dendritic cell protein
757191	−0.5735888	ESTs
740620	−0.5730915	tropomyosin 2 (beta)
1470048	−0.5729078	lymphocyte antigen 6 complex, locus E
788518	−0.5724497	peroxisomal membrane protein 3 (35 kD, Zellweger syndrome)
177665	−0.5718286
221846	−0.5714352	checkpoint suppressor 1
37671	−0.5712258	hypothetical protein FLJ21610
2072862	−0.5694163	v-akt murine thymoma viral oncogene homolog 2
132637	−0.5694152	grancalcin, EF-hand calcium-binding protein
1474900	−0.5693091	keratin 15
34093	−0.5692081	EST
1881689	−0.568518	hypothetical protein FLJ20281
1883327	−0.5684295	ESTs
1902764	−0.5683052	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3
781017	−0.5676944	early growth response 2 (Krox-20 (Drosophila) homolog)
34150	−0.5673709	ESTs
137602	−0.5667198	Homo sapiens mRNA; cDNA DKFZp434G0972 (from clone
		DKFZp434G0972)
460126	−0.5652362	KIAA0819 protein
470128	−0.5652125	myosin IE
1880885	−0.5638973	ESTs
811848	−0.5637994	hypothetical protein
1417886	−0.563564	hypothetical protein FLJ23239
756847	−0.5632582	deformed epidermal autoregulatory factor 1 (Drosophila)
505243	−0.5616577	inositol 1,4,5-triphosphate receptor, type 2
840677	−0.5611985	immunoglobulin kappa constant
1911663	−0.5610314	ESTs
66491	−0.5579872	plasmolipin
1420842	−0.5574834	mucosa associated lymphoid tissue lymphoma translocation
		gene 1
1626996	−0.5573507	c-fos induced growth factor (vascular endothelial growth factor
		D)
281190	−0.5572026	ESTs
796475	−0.5563457	four and a half LIM domains 3
1870305	−0.5558155	heat shock 27 kD protein 2
767456	−0.5555493	hypothetical protein FLJ22167
292388	−0.554297
795178	−0.5532479	lactate dehydrogenase C
809998	−0.5519459	amylase, alpha 2A; pancreatic
1734754	−0.5512835	hypothetical protein B
27769	−0.5501268	ESTs
950355	−0.550114	ESTs, Weakly similar to S13495 pregnancy zone protein
		[H. sapiens]
144924	−0.5498123	chromosome 6 open reading frame 5
502436	−0.5489864	insulin receptor substrate 2
138672	−0.5483104	ESTs
160192	−0.5482009	ESTs, Weakly similar to 2004399A chromosomal protein
		[H. sapiens]
768007	−0.547374	hypothetical protein
130201	−0.5468031	intercellular adhesion molecule 2
1587847	−0.5466442	minichromosome maintenance deficient (mis5, S. pombe) 6
1558212	−0.5458261	ESTs
1470278	−0.5449844	hypothetical protein FLJ21841
811088	−0.5445374	ephrin-B3
197056	−0.5440514	ESTs
868630	−0.5426831	transforming growth factor beta-stimulated protein TSC-22
530958	−0.5423532	smoothened (Drosophila) homolog
810097	−0.5423072	Homo sapiens cDNA: FLJ21721 fis, clone COLF0381
207735	−0.5422739	serine (or cysteine) proteinase inhibitor, clade A (alpha-1
		antiproteinase, antitrypsin), member 1
79254	−0.541673	MHC class I region ORF
85634	−0.5410684	complement component 1, s subcomponent
531319	−0.5404527	serine/threonine kinase 12
754028	−0.5396001	KIAA0469 gene product
470148	−0.5393193	ESTs
35828	−0.5391332	diphtheria toxin receptor (heparin-binding epidermal growth
		factor-like growth factor)
970590	−0.5383645	Homo sapiens mRNA; cDNA DKFZp434A115 (from clone
		DKFZp434A115)
753162	−0.5377767	KIAA0603 gene product
241066	−0.5369493	Homo sapiens cDNA: FLJ21028 fis, clone CAE07155
1909935	−0.5368632	ESTs
153760	−0.5361176	EphB1
247616	−0.5358709	lipoma HMGIC fusion partner
1031640	−0.5354869	ESTs
24958	−0.5349519	Homo sapiens mRNA; cDNA DKFZp434C2016 (from clone
		DKFZp434C2016)
1686766	−0.5342051	Rag D protein
2009491	−0.5334821	cyclin-E binding protein 1
611532	−0.5320107	troponin I, skeletal, fast
811149	−0.5319742	chromosome 9 open reading frame 3
844703	−0.5309356	Sam68-like phosphotyrosine protein, T-STAR
70749	−0.5295091	Homo sapiens cDNA: FLJ21874 fis, clone HEP02488
324927	−0.5284875	KIAA0375 gene product
491519	−0.5282605	Homo sapiens clone 24775 mRNA sequence
754040	−0.5282144	NS1-associated protein 1
767765	−0.5282008	GTP-binding protein overexpressed in skeletal muscle
2028722	−0.5277252	osteoblast specific factor 2 (fasciclin I-like)
509458	−0.5266016	hypothetical protein from clone 643
360518	−0.5253745	guanine nucleotide binding protein (G protein), gamma
		transducing activity polypeptide 1
40021	−0.5240809	hairless protein (putative single zinc finger transcription factor
		protein, responsible for autosomal recessive universal
		congenital alopecia, HR gene)
1901310	−0.5229967	KIAA1209 protein
33949	−0.5222135	phosphoribosyl pyrophosphate synthetase-associated protein 1
814316	−0.521831	ribosomal protein L13
488130	−0.5201845	Homo sapiens cDNA FLJ20767 fis, clone COL06986
462939	−0.5200097	ESTs
770848	−0.5188717	ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY J
		SEQUENCE CONTAMINATION WARNING ENTRY [H. sapiens]
245296	−0.5184238	RAD52 (S. cerevisiae) homolog
753034	−0.5182019	nuclear factor I/X (CCAAT-binding transcription factor)
712829	−0.5181236	LIM domain only 2 (rhombotin-like 1)
1577920	−0.5161377	ESTs
814526	−0.5156162	seb4D
773301	−0.5147295	cadherin 3, type 1, P-cadherin (placental)
77972	−0.5144916	complement component 3
1704155	−0.5133015	hypothetical protein SBBI48
1572298	−0.5126426	CD3Z antigen, zeta polypeptide (TiT3 complex)
755689	−0.5122586	retinoic acid receptor, gamma
1876217	−0.5108977	DnaJ (Hsp40) homolog, subfamily A, member 2
712401	−0.5107426	phosphoinositide-3-kinase, catalytic, delta polypeptide
713839	−0.5088558	transcription factor AP-4 (activating enhancer-binding protein 4)
180803	−0.5083354	inositol polyphosphate-1-phosphatase
814443	−0.5075293	hypothetical protein MGC3232

Example V

Genes for Discriminating Between Normal and DCIS

As shown in Table 4 below, 1300 genes were identified as being able to discriminate between normal and DCIS.

TABLE 4
CloneID	Weight	Description
1323448	1.397391	cysteine-rich protein 1 (intestinal)
788654	1.2615322	growth factor receptor-bound protein 2
1505038	1.1904802	hypothetical protein FLJ20171
745606	1.1825585	hypothetical protein PP591
565319	1.0969429	Homo sapiens mRNA; cDNA DKFZp564B1264 (from clone
		DKFZp564B1264)
35147	1.0886084	ESTs, Weakly similar to unnamed protein product [H. sapiens]
178805	1.0274897	Human DNA sequence from clone RP5-850E9 on chromosome
		20. Contains part of the gene for a novel C2H2 type zinc finger
		protein similar to Drosophila Scratch (Scrt), Slug and Xenopus
		Snail, a novel gene similar to Drosophila CG6762, STSs, GSSs
		and five CpG
796469	1.0269115	HSPC150 protein similar to ubiquitin-conjugating enzyme
1609836	1.0164283	glutamate-ammonia ligase (glutamine synthase)
366132	1.013995	succinate dehydrogenase complex, subunit C, integral
		membrane protein, 15 kD
1500000	1.0118809	H2B histone family, member B
812238	1.0043787	hypothetical protein MGC4692
595037	0.990461	retinoic acid induced 3
1554549	0.9764206	hydroxyacyl glutathione hydrolase
488964	0.9569176	H2A histone family, member O
138189	0.9386802	Wolfram syndrome 1 (wolframin)
283919	0.937383	H2A histone family, member L
823598	0.9153521	proteasome (prosome, macropain) 26S subunit, non-ATPase,
		12
810711	0.9128832	stearoyl-CoA desaturase (delta-9-desaturase)
1911343	0.9116745	RAB26, member RAS oncogene family
503215	0.9108688	pilin-like transcription factor
811774	0.9073627	CGI-49 protein
122077	0.9021901	putative membrane protein
1492238	0.9019233	HSPC003 protein
469686	0.8919992	Ric (Drosophila)-like, expressed in many tissues
685516	0.8762873	putative G protein-coupled receptor
359887	0.8692353	translocase of inner mitochondrial membrane 17 (yeast)
		homolog A
131094	0.8675719	Homo sapiens cDNA: FLJ21587 fis, clone COL06946
1492463	0.8634521	selenoprotein X, 1
843195	0.8603524	phosphoserine phosphatase
796723	0.8573155	Homo sapiens clone CDABP0014 mRNA sequence
488202	0.8463961	ESTs, Weakly similar to YZ28_HUMAN HYPOTHETICAL
		PROTEIN ZAP128 [H. sapiens]
1492426	0.8445255	chromosome 19 open reading frame 3
280375	0.8392836	PRO2000 protein
290841	0.8346933	H2B histone family, member A
1917941	0.8340565	purine-rich element binding protein B
1469425	0.8296141	SRY (sex determining region Y)-box 22
2016908	0.8282806	ESTs, Weakly similar to CA13_HUMAN COLLAGEN ALPHA
		1(III) CHAIN PRECURSOR [H. sapiens]
471568	0.8264546	hematological and neurological expressed 1
150003	0.8251408	hypothetical protein FLJ13187
2029173	0.8213721	ESTs, Weakly similar to N-WASP [H. sapiens]
731044	0.8169506	glutaredoxin 2
244801	0.8066357	Rho guanine exchange factor (GEF) 11
2054635	0.7914755	proteasome (prosome, macropain) subunit, alpha type, 7
1605426	0.787298	hypothetical protein FLJ13352
1709791	0.7837549	BAI1-associated protein 1
470061	0.77977	seven in absentia (Drosophila) homolog 2
1640821	0.7790286	ESTs, Weakly similar to I78885 serine/threonine-specific
		protein kinase [H. sapiens]
199403	0.7754748	lectin, galactoside-binding, soluble, 8 (galectin 8)
741474	0.7732047	glucose phosphate isomerase
1435862	0.7697423	antigen identified by monoclonal antibodies 12E7, F21 and O13
239568	0.767277	annexin A9
841679	0.7666686	calcium and integrin binding protein (DNA-dependent protein
		kinase interacting protein)
729975	0.7649717	meningioma expressed antigen 5 (hyaluronidase)
2016648	0.7633048	Homo sapiens mRNA; cDNA DKFZp434N1728 (from clone
		DKFZp434N1728)
2052113	0.7627076	hypothetical protein FLJ10903
347373	0.7563599	transcription elongation factor B (SIII), polypeptide 1 (15 kD,
		elongin C)
814054	0.7539407	KIAA0040 gene product
741977	0.7538359	B-factor, properdin
272529	0.7486269	phosphomannomutase 2
824879	0.7432221	hypothetical protein MGC11275
122241	0.7394284	proteasome (prosome, macropain) subunit, beta type, 2
744417	0.7356767	carnitine acetyltransferase
868128	0.7347171	JM4 protein
241348	0.7324115	prenylcysteine lyase
509823	0.7304507	carcinoembryonic antigen-related cell adhesion molecule 6
		(non-specific cross reacting antigen)
1636092	0.7270017	hypothetical protein FLJ20657
42408	0.725109	hypothetical protein MGC4604
686552	0.7231319	golgi phosphoprotein 1
898032	0.7216	KIAA0097 gene product
754628	0.7195265	ESTs
826256	0.7190206	transmembrane 7 superfamily member 1 (upregulated in
		kidney)
2043167	0.7167431	BCL2-associated athanogene 3
827171	0.7154964	ESTs
502774	0.7148695	hypothetical protein FLJ20623
781097	0.7126945	reticulon 3
810725	0.7115051	ATPase, H+ transporting, lysosomal (vacuolar proton pump)
		21 kD
768570	0.7102463	hypothetical protein FLJ11280
813281	0.7092607	WW domain-containing protein 1
39884	0.7075527	IMP (inosine monophosphate) dehydrogenase 1
969877	0.707469	synaptosomal-associated protein, 25 kD
704254	0.7061648	a disintegrin and metalloproteinase domain 8
236034	0.7039329	uncoupling protein 2 (mitochondrial, proton carrier)
782428	0.701077	KIAA0250 gene product
489351	0.7003616	hypothetical protein DKFZp566J2046
37708	0.6986007	hypothetical protein MGC3101
271472	0.6978431	C3HC4-like zinc finger protein
782608	0.6978285	mitochondrial ribosomal protein L9
704414	0.6940045	small nuclear ribonucleoprotein polypeptides B and B1
288999	0.6938843	small protein effector 1 of Cdc42
51773	0.6925666	hypothetical protein MGC3077
124447	0.6918546	KIAA1184 protein
470099	0.6915952	HT002 protein; hypertension-related calcium-regulated gene
429799	0.6915155	hypothetical protein FLJ21939 similar to 5-azacytidine induced
		gene 2
1858892	0.6904662	hypothetical protein MGC4825
796694	0.6893307	baculoviral IAP repeat-containing 5 (survivin)
284261	0.6890531	uncharacterized hematopoietic stem/progenitor cells protein
		MDS030
814528	0.6878182	Homo sapiens cDNA: FLJ22139 fis, clone HEP20959
788654	0.6866898
68636	0.6838604	hypothetical protein MGC2477
308466	0.6800103	GTP-binding protein Sara
1574058	0.6796357	1-acylglycerol-3-phosphate O-acyltransferase 2
		(lysophosphatidic acid acyltransferase, beta)
79520	0.6769129	RAB2, member RAS oncogene family
1473289	0.674396	protective protein for beta-galactosidase (galactosialidosis)
365738	0.6740773	ESTs
768064	0.673441	cytochrome P450, subfamily I (aromatic compound-inducible),
		polypeptide 1
773922	0.6730903	KIAA0005 gene product
1869201	0.6727191	hypothetical protein MGC2745
686172	0.6724684	KIAA0008 gene product
810558	0.6698194	proteasome (prosome, macropain) 26S subunit, ATPase, 4
753299	0.6694573	hypothetical protein FLJ10504
725454	0.6669973	CDC28 protein kinase 2
470124	0.6641768	RAD1 (S. pombe) homolog
2014034	0.6620303	methylene tetrahydrofolate dehydrogenase (NAD+ dependent),
		methenyltetrahydrofolate cyclohydrolase
209066	0.6611038
859761	0.6573769	poliovirus receptor-related 2 (herpesvirus entry mediator B)
589232	0.6551447	hypothetical protein FLJ11506
340558	0.6550804	actin related protein 2/3 complex, subunit 5 (16 kD)
186768	0.6550741	Homo sapiens, clone IMAGE: 3604869, mRNA
813629	0.6549767	YME1 (S. cerevisiae)-like 1
1492780	0.6544659	Homo sapiens cDNA FLJ14459 fis, clone HEMBB1002409
809944	0.6530236	KIAA0310 gene product
83363	0.6526164	protein-L-isoaspartate (D-aspartate) O-methyltransferase
149355	0.6520333	translocating chain-associating membrane protein
752631	0.650399	fibroblast growth factor receptor 3 (achondroplasia,
		thanatophoric dwarfism)
785616	0.6484744	signal sequence receptor, alpha (translocon-associated protein
		alpha)
76605	0.6484522	nesca protein
742707	0.6476434	ESTs, Weakly similar to MUC2_HUMAN MUCIN 2
		PRECURSOR [H. sapiens]
325606	0.647638	hypothetical protein MGC14353
769921	0.6464245	ubiquitin carrier protein E2-C
1435003	0.6457486	tumor suppressing subtransferable candidate 1
1473922	0.6450042	actin related protein 2/3 complex, subunit 3 (21 kD)
1456348	0.6417276	N-acetylneuraminic acid phosphate synthase; sialic acid
		synthase
1500162	0.6416738	ESTs
1573251	0.6410435	peroxisomal long-chain acyl-coA thioesterase
46248	0.640944	ADP-ribosyltransferase (NAD+; poly (ADP-ribose) polymerase)
49351	0.6386132	SEX gene
824052	0.6375787	chromosome 6 open reading frame 1
1420370	0.6344209	biliverdin reductase B (flavin reductase (NADPH))
842994	0.6343858	cathepsin Z
810612	0.6341098	S100 calcium-binding protein A11 (calgizzarin)
123614	0.633308	hypothetical protein MGC4675
124781	0.6324418	squalene epoxidase
814378	0.6317382	serine protease inhibitor, Kunitz type, 2
2108077	0.6312583	CGI-112 protein
289978	0.6308861	ubiquitin-like 4
67765	0.6300886	carboxypeptidase M
742595	0.6265846	cyclin-dependent kinase 5
727078	0.6263882	Homo sapiens cDNA: FLJ23602 fis, clone LNG15735
487733	0.6262778
366067	0.625758	cerebellar degeneration-related protein (62 kD)
292770	0.6231261	Homo sapiens, clone IMAGE: 3627860, mRNA, partial cds
366353	0.6203012	DKFZP564C186 protein
810063	0.620086	growth factor, erv1 (S. cerevisiae)-like (augmenter of liver
		regeneration)
810124	0.6162712	platelet-activating factor acetylhydrolase, isoform Ib, gamma
		subunit (29 kD)
713782	0.6149877	a disintegrin and metalloproteinase domain 15 (metargidin)
782608	0.6137782
530197	0.6122721	ESTs, Moderately similar to ALU8_HUMAN ALU SUBFAMILY
		SX SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
44292	0.6122043	Homo sapiens mRNA; cDNA DKFZp434C107 (from clone
		DKFZp434C107)
2018084	0.6119069	Ste-20 related kinase
789012	0.6104002	fibulin 2
256619	0.6102239	hydroxysteroid (17-beta) dehydrogenase 7
825327	0.6094796	Homo sapiens cDNA FLJ14105 fis, clone MAMMA1001202
842980	0.6081528	developmentally regulated GTP-binding protein 1
811761	0.6045809	Nijmegen breakage syndrome 1 (nibrin)
1601947	0.6045149	cytochrome c oxidase subunit VIIa polypeptide 2 (liver)
1474955	0.6045103	TATA box binding protein (TBP)-associated factor, RNA
		polymerase II, N, 68 kD (RNA-binding protein 56)
1758590	0.6040962	fatty-acid-Coenzyme A ligase, long-chain 3
1456701	0.6038789	B-cell CLL/lymphoma 9
207288	0.603346	insulin induced gene 1
1631699	0.6027911	valosin-containing protein
1635681	0.6022549	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 2
		(8 kD, B8)
768452	0.6018854	Homo sapiens EST from clone 491476, full insert
897806	0.6015789	hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix
		transcription factor)
108425	0.6008772
770785	0.600311	1,2-alpha-mannosidase IC
2110511	0.5987863	artemin
785795	0.598504	hypothetical protein FLJ12910
120271	0.5982507	hypothetical protein MGC4692
248649	0.5975539	hypothetical protein FLJ13910
2244196	0.5972111	B-cell receptor-associated protein BAP29
66406	0.5966701	hypothetical protein DKFZp762E1312
1537001	0.59528	ESTs
2028949	0.5946445	hypothetical protein PRO1855
40173	0.5940582	KIAA0807 protein
490778	0.5932928	low molecular mass ubiquinone-binding protein (9.5 kD)
503889	0.5930018	hypothetical protein FLJ10656
781019	0.5918462	paraoxonase 2
196189	0.5916252	cytochrome b-5
1734309	0.5894492	sperm associated antigen 4
814350	0.588877	insulin-degrading enzyme
2018821	0.5887114	ATPase inhibitor precursor
365358	0.5883524	pM5 protein
430235	0.5874504	H2B histone family, member Q
1422338	0.5874097	ribonucleotide reductase M2 polypeptide
770845	0.5870877	hexokinase 1
172517	0.5869599	hippocalcin-like 1
1884404	0.5849803	KIAA0285 gene product
625923	0.5839066	phosphoenolpyruvate carboxykinase 2 (mitochondrial)
2322367	0.5832711	reticulon 4
624667	0.5828923	CGI-92 protein
826363	0.5823873	lysophospholipase II
859228	0.5817344	isocitrate dehydrogenase 1 (NADP+), soluble
2302099	0.5813788	sialidase 3 (membrane sialidase)
209066	0.5794211	serine/threonine kinase 15
1844765	0.57783	Homo sapiens mRNA; cDNA DKFZp564O1763 (from clone
		DKFZp564O1763)
191904	0.5770884	BUB3 (budding uninhibited by benzimidazoles 3, yeast)
		homolog
951233	0.5767874	proteasome (prosome, macropain) subunit, beta type, 3
809357	0.5767382	Bernardinelli-Seip congenital lipodystrophy 2 (seipin)
825740	0.5762093	DKFZp434J1813 protein
51532	0.5758765	ADP-ribosylation factor-like 6 interacting protein
203003	0.5743416	non-metastatic cells 4, protein expressed in
2015517	0.5742448	hypothetical protein FLJ22237
205049	0.5734444	protein kinase H11; small stress protein-like protein HSP22
752643	0.5732323	group XII secreted phospholipase A2
753400	0.5732322	CGI-204 protein
564847	0.573202	ESTs
785766	0.5731938	hypothetical protein
825585	0.5722829	tubulin-specific chaperone e
37554	0.5706008	hypothetical protein FLJ22353
144880	0.5704416	hypothetical protein from EUROIMAGE 1759349
49273	0.5691181	solute carrier family 27 (fatty acid transporter), member 4
743589	0.568516	ESTs, Weakly similar to T2D3_HUMAN TRANSCRIPTION
		INITIATION FACTOR TFIID 135 KDA SUBUNIT [H. sapiens]
1616253	0.567837	breast carcinoma amplified sequence 1
1581941	0.5676045	hypothetical protein FLJ14540
431505	0.5670119	ESTs, Highly similar to A31026 probable membrane receptor
		protein [H. sapiens]
2019223	0.5663073	mitochondrial ribosomal protein L17
840878	0.5648009	seladin-1
811024	0.5646461	bone marrow stromal cell antigen 2
564492	0.5626905	mitochondrial carrier homolog 2
725841	0.561197	KIAA0662 gene product
701751	0.561139	cut (Drosophila)-like 1 (CCAAT displacement protein)
767798	0.560181	ATX1 (antioxidant protein 1, yeast) homolog 1
109863	0.559767	epithelial membrane protein 2
1536006	0.5590182	ESTs
1845169	0.5588842	RAB35, member RAS oncogene family
343607	0.5588222	AD-015 protein
212542	0.5587394	Homo sapiens cDNA FLJ12900 fis, clone NT2RP2004321
1700436	0.5569949	ESTs
795256	0.5567908	NPD007 protein
2011515	0.5566484	DKFZP586B0923 protein
504308	0.5564295	hypothetical protein FLJ10540
772925	0.5562164	HSPCO34 protein
469383	0.5558732	chromosome 8 open reading frame 1
810402	0.5555749	hypothetical protein
1409509	0.554703	troponin T1, skeletal, slow
2050827	0.5544641	proteasome (prosome, macropain) 26S subunit, ATPase, 5
770355	0.5518948	lanosterol synthase (2,3-oxidosqualene-lanosterol cyclase)
813410	0.5513568	polymerase (RNA) II (DNA directed) polypeptide K (7.0 kD)
80764	0.5510626	hypothetical protein
1631735	0.5502891	Homo sapiens, clone IMAGE: 3604336, mRNA, partial cds
625234	0.550211	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein
		retention receptor 3
279970	0.5502099	adenosine A2a receptor
1518402	0.5497179	KIAA1361 protein
753378	0.548977	hypothetical protein FLJ22649 similar to signal peptidase
		SPC22/23
594500	0.5474088	EST
590774	0.5460342	mitogen-activated protein kinase 13
2055807	0.5460123	protein kinase domains containing protein similar to
		phosphoprotein C8FW
773188	0.5454398	nuclear receptor subfamily 1, group D, member 2
126851	0.5454014	hypothetical protein FLJ11160
244764	0.5450377	B7 homolog 3
813419	0.5447006	hydroxyacyl-Coenzyme A dehydrogenase, type II
233349	0.5446353	hypothetical protein FLJ10761
785701	0.5446211	RAB31, member RAS oncogene family
268946	0.5440003	WD40 protein Ciao1
611443	0.5432426	myoglobin
510575	0.5430211	hypothetical protein FLJ22087
491465	0.5420241	hypothetical protein FLJ10035
1393018	0.5404243	general transcription factor IIIC, polypeptide 1 (alpha subunit,
		220 kD)
785840	0.5401209	SEC24 (S. cerevisiae) related gene family, member D
1460110	0.5392177	proteasome (prosome, macropain) subunit, beta type, 5
731308	0.5371204	citrate synthase
301122	0.5368073	extracellular matrix protein 1
66535	0.5363248	ornithine decarboxylase antizyme 2
265103	0.5361177	Homo sapiens mRNA; cDNA DKFZp547M123 (from clone
		DKFZp547M123)
788334	0.5347204	mitochondrial ribosomal protein L23
813631	0.534683	seven transmembrane protein TM7SF3
1553306	0.5344506	proteasome (prosome, macropain) 26S subunit, non-ATPase,
		11
1461477	0.5343834	Homo sapiens mRNA; cDNA DKFZp586I0324 (from clone
		DKFZp586I0324)
199645	0.5334951	nicastrin
884425	0.5327862	chaperonin containing TCP1, subunit 5 (epsilon)
1518890	0.5314577	metallothionein-like 5, testis-specific (tesmin)
756442	0.5313744	P450 (cytochrome) oxidoreductase
2326057	0.5310995	MLN51 protein
138788	0.5302936	prolactin receptor
1698036	0.5298397	ubiquitin-conjugating enzyme E2 variant 1
811585	0.5288102	huntingtin (Huntington disease)
795185	0.5276861	xenotropic and polytropic retrovirus receptor
629944	0.5273447	myosin VB
784105	0.5259815	ESTs
1696757	0.5254296	hypothetical protein KIAA1165
139835	0.5253386	UDP-glucose dehydrogenase
1738208	0.5240868	a disintegrin-like and metalloprotease (reprolysin type) with
		thrombospondin type 1 motif, 4
593431	0.5235073	ESTs, Moderately similar to CEGT_HUMAN CERAMIDE
		GLUCOSYLTRANSFERASE [H. sapiens]
2309073	0.5226599	frizzled (Drosophila) homolog 5
825470	0.5218731	topoisomerase (DNA) II alpha (170 kD)
839682	0.5208954	ubiquitin-conjugating enzyme E2N (homologous to yeast
		UBC13)
1517171	0.5195255	interleukin 2 receptor, alpha
376516	0.5195127	cell division cycle 4-like
774446	0.5181672	adrenomedullin
1476053	0.5179015	RAD51 (S. cerevisiae) homolog (E coli RecA homolog)
489594	0.5178551	hypothetical protein FLJ11565
1573946	0.5173691	programmed cell death 9
503851	0.5170168	nuclear receptor co-repressor/HDAC3 complex subunit
882484	0.5165756	chaperonin containing TCP1, subunit 7 (eta)
51083	0.5162686	catenin (cadherin-associated protein), delta 2 (neural
		plakophilin-related arm-repeat protein)
221295	0.5157877	inhibitor of DNA binding 2, dominant negative helix-loop-helix
		protein
725978	0.5147267	ESTs, Moderately similar to ALU7_HUMAN ALU SUBFAMILY
		SQ SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
796757	0.5122331	adaptor-related protein complex 3, sigma 1 subunit
150314	0.5114988	lysophospholipase I
302031	0.5111067	Ste20-related serine/threonine kinase
293569	0.5103638	chromosome 1 open reading frame 21
838366	0.5072623	3-hydroxymethyl-3-methylglutaryl-Coenzyme A lyase
		(hydroxymethylglutaricaciduria)
122147	0.5067128
120749	0.5060444	ESTs, Moderately similar to KIAA1215 protein [H. sapiens]
855563	0.5059683	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 3
487733	0.5057167	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 2
		(8 kD, AGGG)
625693	0.5055986	hypothetical protein MGC10911
813751	0.5051993	sialyltransferase 4C (beta-galactosidase alpha-2,3-
		sialytransferase)
842825	0.5047729	G1 to S phase transition 1
323693	0.5047237	adaptor-related protein complex 1, sigma 1 subunit
202514	0.5045411	DNA (cytosine-5-)-methyltransferase 3 alpha
1517749	0.5045134	ESTs
124331	0.5025464	cleavage and polyadenylation specific factor 5, 25 kD subunit
1474424	0.5021308	Homo sapiens cDNA FLJ12758 fis, clone NT2RP2001328
1848977	0.5015371	glycerol kinase
454896	0.5013449	DnaJ (Hsp40) homolog, subfamily A, member 2
1702742	0.5011725	solute carrier family 7 (cationic amino acid transporter, y+
		system), member 5
746163	0.5009715	ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY J
		SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
810734	0.4998276	polymerase (DNA-directed), delta 4
725284	0.4992842	phosphorylase kinase, gamma 2 (testis)
52103	0.4988158	hypothetical protein FLJ23045
739109	0.4986821	adaptor-related protein complex 2, sigma 1 subunit
488505	0.4981852	accessory proteins BAP31/BAP29
365060	0.4976091	RAB11A, member RAS oncogene family
41569	0.4974126	hypothetical protein FLJ12650
81336	0.4955353	uteroglobin
700792	0.4949149	cyclin-dependent kinase inhibitor 3 (CDK2-associated dual
		specificity phosphatase)
1592715	0.4944665	Homer, neuronal immediate early gene, 3
142586	0.4942961	MCT-1 protein
261472	0.4941066	putative nuclear protein ORF1-FL49
246800	0.4927231	hypothetical protein FLJ10803
124298	0.4922937	microsomal glutathione S-transferase 3
1898619	0.4916939	hypothetical protein MGC15737
739126	0.4905859	tissue specific transplantation antigen P35B
376875	0.490328	flavin containing monooxygenase 1
358162	0.4901786	protein predicted by clone 23627
590759	0.4895021	sterol-C4-methyl oxidase-like
1947647	0.4887766	CGI-147 protein
120271	0.4886584	hypothetical protein MGC4692
488642	0.4881613	ESTs, Weakly similar to I38022 hypothetical protein [H. sapiens]
1492468	0.4878466	DEME-6 protein
345538	0.4875796	cathepsin L
344091	0.4871044	ESTs
123441	0.4862068	ribosomal protein L7a
202901	0.48608	vav 2 oncogene
757489	0.4859039	tubulin, alpha 2
49117	0.4856399	KIAA0215 gene product
812994	0.4854155	retinoid X receptor, alpha
731023	0.4853217	WD repeat domain 5
814899	0.4840969	BCL2/adenovirus E1B 19 kD-interacting protein 3-like
756666	0.4835569	protein phosphatase 1, catalytic subunit, alpha isoform
2018337	0.4833207	glucosidase, beta; acid (includes glucosylceramidase)
1568825	0.4829928	Arg/Abl-interacting protein ArgBP2
869375	0.4827093	isocitrate dehydrogenase 2 (NADP+), mitochondrial
595213	0.4824381	hypothetical protein
744374	0.4824256	putative ankyrin-repeat containing protein
73009	0.4822587	ESTs, Weakly similar to A43932 mucin 2 precursor, intestinal
		[H. sapiens]
70606	0.481356	ESTs
358456	0.4812268	Sec61 gamma
810762	0.4806851	SNARE protein
823930	0.4800704	actin related protein 2/3 complex, subunit 1A (41 kD)
2020898	0.4797032	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3
564981	0.4782207	ESTs
1637282	0.4777562	hexokinase 2
855749	0.476968	triosephosphate isomerase 1
744944	0.4769116	myosin VI
263727	0.4767486	DNA segment, single copy probe LNS-CAI/LNS-CAII (deleted
		in polyposis
470092	0.476018	like-glycosyltransferase
782513	0.4759571	interferon, alpha-inducible protein (clone IFI-6-16)
897813	0.4749348	polyadenylate binding protein-interacting protein 1
141852	0.4748862	purinergic receptor P2Y, G-protein coupled, 2
855800	0.4748367	prolyl endopeptidase
41356	0.4746307	protein phosphatase 2, regulatory subunit B (B56), alpha
		isoform
753320	0.4744893	hypothetical protein FLJ20533
784140	0.474314	WD repeat domain 15
530310	0.4739401	KIAA0143 protein
813387	0.4727653	diaphorase (NADH/NADPH) (cytochrome b-5 reductase)
358267	0.4719017	EST, Moderately similar to AF119917 63 PRO2831 [H. sapiens]
2018527	0.4717524	dolichyl-phosphate mannosyltransferase polypeptide 3
781342	0.4716127	hypothetical protein MGC11115
785707	0.4708376	protein regulator of cytokinesis 1
140635	0.4706227	ESTs
814306	0.4705205	tumor protein D52
784150	0.4702303	RAB31, member RAS oncogene family
839746	0.4699443	Homo sapiens, Similar to RIKEN cDNA 5830420C20 gene,
		clone IMAGE: 3633379, mRNA, partial cds
377384	0.4698441	nuclear receptor subfamily 2, group F, member 2
183200	0.4697062	fumarylacetoacetate hydrolase (fumarylacetoacetase)
345423	0.4694596	DKFZP564M112 protein
204686	0.4687565	FXYD domain-containing ion transport regulator 1
		(phospholemman)
428582	0.4684705	hypothetical protein FLJ20296
210862	0.4683996	acyl-Coenzyme A oxidase 1, palmitoyl
51741	0.4678807	GTP-binding protein
296702	0.4670993	deiodinase, iodothyronine, type I
840865	0.4666048	myristoylated alanine-rich protein kinase C substrate
		(MARCKS, 80K-L)
278531	0.4663008	cytochrome c oxidase subunit VIc
60565	0.4659865	lethal giant larvae (Drosophila) homolog 2
1639531	0.4658349	RAB27A, member RAS oncogene family
346942	0.4657601	phosphatidylinositol glycan, class Q
884498	0.4648731	uncharacterized hypothalamus protein HT012
345787	0.4647372	highly expressed in cancer, rich in leucine heptad repeats
825296	0.4646099	low density lipoprotein receptor defect C complementing
2248488	0.4645687	ems1 sequence (mammary tumor and squamous cell
		carcinoma-associated (p80/85 src substrate)
824962	0.4638758	karyopherin alpha 2 (RAG cohort 1, importin alpha 1)
843054	0.4637278	KIAA1533 protein
140289	0.4624364	hypothetical protein
1558233	0.4622449	ESTs
265592	0.4615543	activated RNA polymerase II transcription cofactor 4
767761	0.4608709	DKFZP434B168 protein
770766	0.4603527	DKFZP564C1940 protein
814209	0.4602081	ESTs
773674	0.4601667	oncogene TC21
703707	0.4599434	aspartate beta-hydroxylase
951216	0.4594172	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 10
		(22 kD, PDSW)
139354	0.4582974	hypothetical protein
79710	0.4579008	KIAA0174 gene product
823574	0.457224	endosulfine alpha
845363	0.4570873	non-metastatic cells 1, protein (NM23A) expressed in
283751	0.4567022	cortistatin
810156	0.4561539	deoxythymidylate kinase (thymidylate kinase)
1416782	0.4558415	creatine kinase, brain
810609	0.4551167	hypothetical protein PP1226
770675	0.454729	Homo sapiens cDNA: FLJ21323 fis, clone COL02374
626318	0.4529715	ubinuclein 1
38356	0.4513099	cytochrome P450, subfamily 46 (cholesterol 24-hydroxylase)
705064	0.4497555	transforming, acidic coiled-coil containing protein 3
127646	0.4493747
299815	0.4482635	hypothetical protein DC42
815026	0.4472842	cleavage stimulation factor, 3′ pre-RNA, subunit 3, 77 kD
489823	0.4468978	COX17 (yeast) homolog, cytochrome c oxidase assembly
		protein
469151	0.4462659	eukaryotic translation initiation factor 2, subunit 2 (beta, 38 kD)
41826	0.4456463	ESTs
47853	0.445149	aldehyde dehydrogenase 4 family, member A1
144740	0.4449229	similar to phosphatidylcholine transfer protein 2
726658	0.4446657	non-metastatic cells 3, protein expressed in
325515	0.444486	hypothetical protein FLJ10980
815781	0.4441245	heat shock 105 kD
746190	0.4430243	hypothetical protein DKFZp761B1514
2016194	0.4417536	glia maturation factor, beta
1584287	0.4413331	KIAA0241 protein
147834	0.4412795	zinc finger protein 217
154610	0.4410751	dynactin 4
754653	0.4405873	cadherin, EGF LAG seven-pass G-type receptor 3, flamingo
		(Drosophila) homolog
742581	0.440367	Homo sapiens cDNA FLJ10366 fis, clone NT2RM2001420
2306987	0.4402912	secreted and transmembrane 1
878406	0.4396935	metaxin 1
430614	0.438809	2,3-bisphosphoglycerate mutase
415102	0.4387892	cell division cycle 25C
358217	0.4385343	glypican 4
1636669	0.4384707	hypothetical protein FLJ21939 similar to 5-azacytidine induced
		gene 2
83358	0.4380365	ESTs
1325816	0.4379227	polymerase (RNA) II (DNA directed) polypeptide L (7.6 kD)
824524	0.4375695	UDP-galactose transporter related
795805	0.4370764	KIAA0332 protein
743977	0.4368155	Homo sapiens mRNA for TL132
785793	0.4367093	capping protein (actin filament) muscle Z-line, alpha 1
266218	0.4362517	hypothetical protein FLJ11350
769600	0.4362014	uracil-DNA glycosylase 2
1656062	0.4355127	coagulation factor XII (Hageman factor)
2017415	0.43546	centromere protein A (17 kD)
772220	0.4352917	for protein disulfide isomerase-related
811907	0.4340842	hypothetical protein FLJ22056
789376	0.4339171	thioredoxin reductase 1
782503	0.4334388	fatty acid desaturase 1
753897	0.4324066	autocrine motility factor receptor
767289	0.4323485	hypothetical protein FLJ10055
1159963	0.4323117	interferon regulatory factor 7
1652310	0.4321289	Homo sapiens, clone MGC: 19613 IMAGE: 3833049, mRNA,
		complete cds
358936	0.4314082	ESTs, Weakly similar to T2D3_HUMAN TRANSCRIPTION
		INITIATION FACTOR TFIID 135 KDA SUBUNIT [H. sapiens]
41698	0.4310061	progesterone binding protein
1635665	0.430087	Homo sapiens, RIKEN cDNA 2010100O12 gene, clone
		MGC: 14813 IMAGE: 4133274, mRNA, complete cds
1558642	0.4298376	hypothetical protein MGC2771
1733262	0.4289711	BLu protein
823694	0.4280476	Homo sapiens chromosome 19, BAC CIT-HSPC_204F22
		(BC228680), complete sequence; contains bacterial insertion
		element
1641894	0.4277815	EST
2572170	0.4277651	ESTs, Weakly similar to T26581 hypothetical protein
		Y32B12A.3 - Caenorhabditis elegans [C. elegans]
731080	0.4276128	hypothetical protein FLJ12661
649084	0.4275738	carbonic anhydrase XI
795498	0.4270889	putative transmembrane protein
897770	0.4270685
2250839	0.4266248	androgen receptor (dihydrotestosterone receptor; testicular
		feminization; spinal and bulbar muscular atrophy; Kennedy
		disease)
510794	0.4264564	c-myc binding protein
825822	0.4255725	hypothetical protein
825659	0.424655	N-myc downstream regulated
826077	0.4242762	pyruvate dehydrogenase (lipoamide) beta
293727	0.4242722	hypothetical protein MGC861
503866	0.4230404	sperm autoantigenic protein 17
491527	0.4219324	Homo sapiens, Similar to CG7083 gene product, clone
		MGC: 10534 IMAGE: 3957147, mRNA, complete cds
292936	0.4217115	hypothetical protein FLJ10468
823940	0.4214277	transducer of ERBB2, 1
414992	0.420994	K562 cell-derived leucine-zipper-like protein 1
346134	0.4209894	calcium-regulated heat-stable protein (24 kD)
51657	0.4208387	hypothetical protein ET
2009779	0.420743	rabaptin-5
1523225	0.4195302	oncostatin M receptor
826194	0.4177687	synaptotagmin-like 2
85804	0.4171445	hypothetical protein FLJ21918
725223	0.4167519	KIAA0077 protein
79726	0.4162264	ESTs, Highly similar to T46395 hypothetical protein
		DKFZp434I1120.1 [H. sapiens]
1762111	0.4160469	natriuretic peptide receptor C/guanylate cyclase C
		(atrionatriuretic peptide receptor C)
509588	0.4157059	TATA box binding protein (TBP)-associated factor, RNA
		polymerase II, J, 20 kD
327506	0.4152106	Homo sapiens mRNA full length insert cDNA clone
		EUROIMAGE 327506
744047	0.4151137	polo (Drosophia)-like kinase
221499	0.4149929	KIAA0508 protein
745394	0.4147627	Homo sapiens cDNA: FLJ23249 fis, clone COL04196
149539	0.4138942	KIAA1700
823907	0.4135955	hypothetical protein FLJ10511
66317	0.4132405	H1 histone family, member 2
295986	0.413087	emopamil-binding protein (sterol isomerase)
565235	0.4124667	spermine synthase
825386	0.4121622	ATP synthase, H+ transporting, mitochondrial F1F0, subunit d
250313	0.4121296	ESTs
72050	0.4114235	chloride channel, nucleotide-sensitive, 1A
417801	0.4112944	mitochondrial ribosomal protein L27
841501	0.4111707	KIAA0102 gene product
813707	0.410787	regulator of G-protein signalling 16
745083	0.4107735	ubiquitin specific protease 18
244974	0.4105439	hypothetical protein FLJ22875
26883	0.4103824	protein kinase (cAMP-dependent, catalytic) inhibitor beta
280249	0.4096162	Kruppel-like factor 7 (ubiquitous)
74738	0.409593	Homo sapiens, clone IMAGE: 3535294, mRNA, partial cds
1753497	0.409432	ovo (Drosophila) homolog-like 1
204299	0.4073087	replication protein A3 (14 kD)
358609	0.4071867	NADH dehydrogenase (ubiquinone) flavoprotein 3 (10 kD)
290101	0.4071477	ESTs
2306221	0.4068933	wingless-type MMTV integration site family, member 10B
726439	0.4067151	CGI-143 protein
431805	0.405447	granulin
111362	0.4045961
472103	0.4043572	soc-2 (suppressor of clear, C. elegans) homolog
788444	0.4042598	KIAA0033 protein
1632252	0.404193	complement component 1, q subcomponent, alpha polypeptide
150118	0.4039789	hypothetical protein DKFZp434F054
594226	0.403676	Homo sapiens cDNA FLJ14459 fis, clone HEMBB1002409
1499828	0.4030396	fucosyltransferase 1 (galactoside 2-alpha-L-fucosyltransferase,
		Bombay phenotype included)
810939	0.40256	hypothetical protein FLJ22169
841621	0.4020253	ESTs, Weakly similar to JE0350 Anterior gradient-2 [H. sapiens]
200144	0.4019827	ring-box 1
486110	0.4017126	profilin 2
292213	0.4014458	guanine nucleotide binding protein (G protein), beta polypeptide 2
1631132	0.401216	peptide transporter 3
669379	0.4011648	Homo sapiens BAC clone RP11-505D17 from 7p22-p21
773685	0.4009493	phosphodiesterase 4D interacting protein (myomegalin)
810411	0.400096	hypothetical protein FLJ13222
1583198	0.39981	ESTs, Weakly similar to S65824 reverse transcriptase homolog
		[H. sapiens]
84295	0.3989864	interleukin 1 receptor antagonist
757328	0.3985331	hypothetical protein FLJ22678
35626	0.39822	Homo sapiens cDNA FLJ14201 fis, clone NT2RP3002955
1587863	0.3980812	acetyl-Coenzyme A acyltransferase 1 (peroxisomal 3-oxoacyl-
		Coenzyme A thiolase)
713862	0.3965573	ubiquitin-protein isopeptide ligase (E3)
343731	0.3962504
43977	0.3961848	KIAA0182 protein
78869	0.3954821	cell membrane glycoprotein, 110000M(r) (surface antigen)
756595	0.395121	S100 calcium-binding protein A10 (annexin II ligand, calpactin I,
		light polypeptide (p11))
701115	0.3936994	hypothetical protein PRO2013
81599	0.3932769	ubiquitin specific protease 14 (tRNA-guanine transglycosylase)
1636844	0.3926235	ring finger protein 14
703739	0.392298	nuclear cap binding protein subunit 1, 80 kD
279633	0.3907503	ESTs, Highly similar to I38759 zinc finger/leucine zipper protein
		[H. sapiens]
122091	0.3903482	casein kinase 2, alpha 1 polypeptide
786067	0.390151	cell division cycle 25B
1909574	0.3900357	mitochondrial ribosomal protein S11
263013	0.3894536	procollagen-lysine, 2-oxoglutarate 5-dioxygenase (lysine
		hydroxylase) 2
491001	0.3884144	glyoxalase I
455275	0.3869874	hypothetical protein FLJ23469
85450	0.3868399	acyl-Coenzyme A oxidase 2, branched chain
773286	0.3861543	solute carrier family 9 (sodium/hydrogen exchanger), isoform 3
		regulatory factor 1
366156	0.3861394	Homo sapiens cDNA FLJ14028 fis, clone HEMBA1003838
49630	0.3858335	calcium channel, voltage-dependent, L type, alpha 1D subunit
121251	0.385792	hypothetical protein MGC5576
2322223	0.3853156	small nuclear ribonucleoprotein polypeptide A
276915	0.3851081	DNA (cytosine-5-)-methyltransferase 3 beta
1591264	0.3849595	transaldolase 1
1434948	0.3849593	HIV TAT specific factor 1
489657	0.3847527	tryptophan rich basic protein
810947	0.3833137	LIS1-interacting protein NUDE1, rat homolog
298417	0.3833014	trefoil factor 3 (intestinal)
154707	0.3831976	MpV17 transgene, murine homolog, glomerulosclerosis
79032	0.3816428	CGI-82 protein
1916575	0.3814206	BCL2-interacting killer (apoptosis-inducing)
1585492	0.3812472	ESTs
1455394	0.3811391	cytochrome c
769942	0.3810371	kinesin-like 4
429387	0.3810004	chimerin (chimaerin) 2
768377	0.3809674	activity-dependent neuroprotective protein
214996	0.380548	ESTs
1557637	0.3805285	ESTs
1517595	0.3804132	KIAA0175 gene product
841260	0.3801713	hypothetical protein
491524	0.3785047	mitochondrial ribosomal protein L13
30170	0.3782337	caspase 3, apoptosis-related cysteine protease
76196	0.3781541	hypothetical protein FLJ20062
2017721	0.3781067	ESTs, Weakly similar to 2109260A B cell growth factor
		[H. sapiens]
134918	0.3779855	ESTs
347726	0.377767	homeo box D8
1469148	0.3776558	FGFR1 oncogene partner
1649374	0.3771383	homogentisate 1,2-dioxygenase (homogentisate oxidase)
241043	0.3770901	Human clone 137308 mRNA, partial cds
815835	0.3764754	hypothetical protein R33729_1
143426	0.3764075	ras homolog gene family, member B
1412245	0.3762847	carboxypeptidase A2 (pancreatic)
786265	0.3760397	KIAA0750 gene product
266500	0.3758559	ESTs
755301	0.3749416	protein kinase C, delta
294397	0.3744208	DKFZP586A0522 protein
155806	0.3741516
41123	0.3739475	Homo sapiens, Similar to RIKEN cDNA 2210021G21 gene,
		clone MGC: 14859 IMAGE: 3621871, mRNA, complete cds
454339	0.3738929	thiopurine S-methyltransferase
810316	0.3732635	very long-chain acyl-CoA synthetase; lipidosin
812105	0.3731726	ALL1-fused gene from chromosome 1q
773426	0.3727398	KIAA0391 gene product
1572710	0.3725734	hypothetical protein FLJ21213
772898	0.372064	ribosomal protein S15a
283739	0.3714571	Homo sapiens cDNA FLJ14028 fis, clone HEMBA1003838
289505	0.3714361	ESTs, Moderately similar to S65657 alpha-1C-adrenergic
		receptor splice form 2 [H. sapiens]
897177	0.3712716	phosphoglycerate mutase 1 (brain)
782547	0.3708058	ESTs
647866	0.3706822	Homo sapiens cDNA FLJ13975 fis, clone Y79AA1001585
1679942	0.3706798	KIAA1053 protein
566443	0.3705134	Homo sapiens cDNA FLJ12793 fis, clone NT2RP2002033
302996	0.3698028	chloride intracellular channel 3
726699	0.3695061	ESTs, Weakly similar to AAB47496 NG5 [H. sapiens]
2094232	0.3693257	chromosome 1 open reading frame 12
2549634	0.3692338	activator of S phase kinase
177827	0.3691459	synaptotagmin VII
852829	0.3691079	karyopherin alpha 3 (importin alpha 4)
207794	0.3679245	nuclear factor (erythroid-derived 2), 45 kD
823909	0.3675927
743810	0.3667087	hypothetical protein MGC2577
810039	0.3662086	defender against cell death 1
53039	0.3659853	carbohydrate (keratan sulfate Gal-6) sulfotransferase 1
809727	0.365892	unc-51 (C. elegans)-like kinase 1
26171	0.3656147	KIAA0856 protein
1570663	0.3656056	FK506-binding protein 4 (59 kD)
179212	0.3649976	ESTs, Moderately similar to T12539 hypothetical protein
		DKFZp434J154.1 [H. sapiens]
292996	0.36439	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase
		activation protein, eta polypeptide
259950	0.364359	hypothetical protein FLJ14991
815794	0.3643266	nucleobindin 2
965223	0.3642603	thymidine kinase 1, soluble
592801	0.3638731	serine palmitoyltransferase, long chain base subunit 2
42831	0.3638165	N-terminal kinase-like
788641	0.3638059	adaptor-related protein complex 1, sigma 2 subunit
813845	0.3637519	RNA, U transporter 1
52076	0.3633002	neuroblastoma (nerve tissue) protein
154493	0.3629466	interferon-induced protein 75, 52 kD
1519013	0.3628651	Homo sapiens, clone IMAGE: 3537447, mRNA, partial cds
1434905	0.3624537	homeo box B7
825282	0.3624112	DKFZP586L0724 protein
322617	0.3623149	v-ral simian leukemia viral oncogene homolog B (ras related;
		GTP binding protein)
814353	0.3622592	phorbol-12-myristate-13-acetate-induced protein 1
2017917	0.360911	Homo sapiens cDNA: FLJ23371 fis, clone HEP16068, highly
		similar to HSTFIISH Homo sapiens mRNA for transcription
		elongation factor TFIIS
813616	0.3608471	FK506-binding protein like
1846982	0.3602851	inhibin, beta C
505289	0.3595549	angiotensin II, type I receptor-associated protein
1565079	0.358728	B-cell linker
795401	0.3573481	diacylglycerol O-acyltransferase (mouse) homolog
781047	0.357207	budding uninhibited by benzimidazoles 1 (yeast homolog)
346696	0.3570344	TEA domain family member 4
809466	0.3568464	DNA segment on chromosome 19 (unique) 1177 expressed
		sequence
743220	0.3566593	hypothetical protein FLJ12517
131268	0.3564734	growth factor receptor-bound protein 14
119133	0.3564449	Homo sapiens mRNA; cDNA DKFZp434B231 (from clone
		DKFZp434B231)
242706	0.3562469	Homo sapiens, Similar to RIKEN cDNA 5730494N06 gene,
		clone MGC: 13349 IMAGE: 4249231, mRNA, complete cds
66599	0.3561699	N-acetyltransferase 1 (arylamine N-acetyltransferase)
46716	0.3557556	ESTs
271899	0.355689	Ser-Thr protein kinase related to the myotonic dystrophy protein
		kinase
25440	0.3554359	staufen (Drosophila, RNA-binding protein) homolog 2
1899312	0.3551595	ESTs
783681	0.354881	upstream regulatory element binding protein 1
131091	0.3548154	Not56 (D. melanogaster)-like protein
300099	0.3547857	ESTs
588436	0.3544892	butyrate-induced transcript 1
2069602	0.3539588	melanocortin 1 receptor (alpha melanocyte stimulating hormone
		receptor)
810959	0.3534647	Rho GDP dissociation inhibitor (GDI) alpha
649977	0.3534567	Homo sapiens clone CDABP0014 mRNA sequence
345069	0.3532976	nuclear factor (erythroid-derived 2)-like 3
767487	0.3530592	ariadne (Drosophila) homolog, ubiquitin-conjugating enzyme
		E2-binding protein, 1
824943	0.3527414	hypothetical protein
744994	0.3526118	hypothetical protein FLJ12242
773381	0.3525581	N-ethylmaleimide-sensitive factor attachment protein, alpha
1568561	0.3518952	BCL2-like 1
2028916	0.3516982	Homo sapiens mRNA for Hmob33 protein, 3′ untranslated
		region
753457	0.3515361	NADH dehydrogenase (ubiquinone) Fe—S protein 1 (75 kD)
		(NADH-coenzyme Q reductase)
2161427	0.3509243	progesterone receptor
1947381	0.3509235	hypothetical protein FLJ22329
82421	0.3506778	zinc finger protein 6 (CMPX1)
504461	0.3506753	opsin 3 (encephalopsin)
754625	0.3503938	ATPase, Class II, type 9A
795543	0.3500184	thioredoxin peroxidase (antioxidant enzyme)
1910316	0.3498986	KIAA0535 gene product
172785	0.3493683	NAG-5 protein
1910078	0.3491481	ESTs, Weakly similar to YK54_YEAST HYPOTHETICAL 18.4 KD
		PROTEIN IN SIS2-MTD1 INTERGENIC REGION
		[S. cerevisiae]
321354	0.3489273	mitochondrial ribosomal protein L15
878815	0.3478601	ADP-ribosylation factor 3
741769	0.3475255	polymerase (DNA directed), beta
487831	0.3464379	Homo sapiens cDNA FLJ14059 fis, clone HEMBB1000573
754046	0.3464097	DNA segment on chromosome X (unique) 9879 expressed
		sequence
344988	0.3464047
530093	0.3463461	myelin protein zero-like 1
823615	0.3462131	Homo sapiens cDNA: FLJ21245 fis, clone COL01184
144881	0.3461767	calumenin
128695	0.3455381	ESTs, Weakly similar to I38344 titin, cardiac muscle [H. sapiens]
884511	0.3440809	cytochrome c oxidase subunit VIIb
128711	0.3437491	anillin (Drosophila Scraps homolog), actin binding protein
470035	0.3436575	prokineticin 1 precursor
1568126	0.3434836	solute carrier family 37 (glycerol-3-phosphate transporter),
		member 1
588911	0.3427563	2′,5′-oligoadenylate synthetase 1 (40-46 kD)
35191	0.3427094	stromal cell-derived factor 2
814989	0.3426862	protein phosphatase 1G (formerly 2C), magnesium-dependent,
		gamma isoform
73638	0.3425644	protein tyrosine phosphatase type IVA, member 2
1605178	0.3416196	amino acid transporter system A1
214068	0.3414185	GATA-binding protein 3
755599	0.3413351	interferon induced transmembrane protein 1 (9-27)
782439	0.3413092	ATP synthase, H+ transporting, mitochondrial F0 complex,
		subunit e
595070	0.3408109	stress-associated endoplasmic reticulum protein 1; ribosome
		associated membrane protein 4
183440	0.3406314	arylsulfatase A
774502	0.3402891	protein tyrosine phosphatase, non-receptor type 12
235986	0.338857	wingless-type MMTV integration site family, member 11
289936	0.3382708	solute carrier family 7, (cationic amino acid transporter, y+
		system) member 11
824108	0.3381616	SCAN domain-containing 1
26617	0.3371923	activated leucocyte cell adhesion molecule
810497	0.3367408	ESTs, Weakly similar to A35363 synapsin I splice form a
		[H. sapiens]
40042	0.3362557	hypothetical protein FLJ10747
811142	0.3361932	phosphoinositide-3-kinase, regulatory subunit, polypeptide 2
		(p85 beta)
2046679	0.3358043	ESTs
487444	0.3357395	cyclic AMP phosphoprotein, 19 kD
78736	0.3354693	Homo sapiens clone 24877 mRNA sequence
1637302	0.3353374	DNAJ domain-containing
825606	0.335057	kinesin-like 1
76362	0.3349202	spectrin, alpha, non-erythrocytic 1 (alpha-fodrin)
1883028	0.3345488	Homo sapiens mRNA; cDNA DKFZp434J1912 (from clone
		DKFZp434J1912)
789383	0.3341667	cAMP responsive element modulator
302549	0.3340582	basic transcription element binding protein 1
309288	0.334016	replication factor C (activator 1) 4 (37 kD)
712314	0.3338146	myosin regulatory light chain interacting protein
241677	0.3332521	Homo sapiens, clone MGC: 18110 IMAGE: 4152745, mRNA,
		complete cds
898253	0.3331924	reticulocalbin 2, EF-hand calcium binding domain
770992	0.3331315
81203	0.3328573	paraoxonase 3
416436	0.3325571	mitochondrial ribosomal protein L24
1660666	0.332029	carbonic anhydrase VB, mitochondrial
811582	0.3319191	golgi phosphoprotein 2
2054122	0.3318413	solute carrier family 11 (proton-coupled divalent metal ion
		transporters), member 3
837864	0.3314764	progestin induced protein
1632247	0.3312131	hypothetical protein FLJ23436
298143	0.3307258	ESTs
2027952	0.3307056	hypothetical protein FLJ20297
1600281	0.3304323	nucleolar protein 3 (apoptosis repressor with CARD domain)
814270	0.3300091	polymyositis/scleroderma autoantigen 1 (75 kD)
415589	0.3296266	Homo sapiens clone PP1498 unknown mRNA
1912951	0.329484	uterine-derived 14 kDa protein
726637	0.3292392	t-complex-associated-testis-expressed 1-like
1474684	0.3291536	ephrin-A1
1843843	0.3290269	KIAA1304 protein
266312	0.3289707	ATPase, Cu++ transporting, beta polypeptide (Wilson disease)
135640	0.3288537	syntaxin 3A
279720	0.3282308	ESTs, Moderately similar to A47582 B-cell growth factor
		precursor [H. sapiens]
724888	0.3272422	cytochrome P450, subfamily IVB, polypeptide 1
811808	0.326728	nucleoside diphosphate kinase type 6 (inhibitor of p53-induced
		apoptosis-alpha)
131566	0.3261265	hypothetical protein MGC11061
154466	0.3258377	STIP1 homology and U-Box containing protein 1
1692195	0.3254467	smg GDS-ASSOCIATED PROTEIN
785368	0.3254362	PDZ-binding kinase; T-cell originated protein kinase
1637516	0.325364	nuclear autoantigen
1637829	0.3246232	ESTs
810567	0.3243984	Homo sapiens, clone MGC: 3182 IMAGE: 3356293, mRNA,
		complete cds
1027283	0.3242547	ESTs
306806	0.324179	Homo sapiens, Similar to hypothetical protein FLJ12838, clone
		IMAGE: 4130879, mRNA, partial cds
855406	0.3241172	Homo sapiens clone TCCCIA00176 mRNA sequence
429222	0.3239231	CGI-107 protein
1500542	0.3228485	regulator of G-protein signalling 11
269606	0.3228482	N-methylpurine-DNA glycosylase
74566	0.3226444	exportin 1 (CRM1, yeast, homolog)
754192	0.3225824	Homo sapiens mRNA; cDNA DKFZp586H0924 (from clone
		DKFZp586H0924)
180785	0.322529	KIAA0726 gene product
824479	0.3225263	exonuclease NEF-sp
842863	0.3225116	N-myc downstream regulated
1708055	0.3225042	glioblastoma overexpressed
1631194	0.3219004	t-complex-associated-testis-expressed 1-like 1
366834	0.3217743	envoplakin
839580	0.3216628	ESTs
245485	0.3215041	hypothetical protein MGC5178
815501	0.3214849	hypothetical protein MGC2721
2017403	0.3211799	regulator of G-protein signalling 3
281476	0.3210873	aspartylglucosaminidase
130835	0.3209345	Homo sapiens, Similar to clone FLB3816, clone
		IMAGE: 3454380, mRNA
77533	0.3205713	inositol polyphosphate-5-phosphatase, 40 kD
42076	0.3194462	TRK-fused gene
810998	0.3179036	DKFZP434C131 protein
75859	−1.8328232	N-myc downstream-regulated gene 2
760299	−1.7010462	dickkopf (Xenopus laevis) homolog 3
344720	−1.5196431	glycophorin C (Gerbich blood group)
345670	−1.4445337	ESTs, Moderately similar to I59348 CCAAT binding
		transcription factor CBF subunit C - rat [R. norvegicus]
200814	−1.4325283	membrane metallo-endopeptidase (neutral endopeptidase,
		enkephalinase, CALLA, CD10)
1882697	−1.4318896	peanut (Drosophila)-like 2
1161564	−1.3891189	desmuslin
788234	−1.3761312	inhibitor of DNA binding 4, dominant negative helix-loop-helix
		protein
1558675	−1.3749762	SRY (sex determining region Y)-box 10
285377	−1.3699153	pellino (Drosophila) homolog 2
45099	−1.3515907	regucalcin (senescence marker protein-30)
611532	−1.3158379	troponin I, skeletal, fast
377275	−1.3102234	ataxia-telangiectasia group D-associated protein
810002	−1.3038896	Homo sapiens, clone MGC: 19762 IMAGE: 3636045, mRNA,
		complete cds
1569187	−1.2971252	heparan sulfate (glucosamine) 3-O-sulfotransferase 4
377461	−1.2798035	caveolin 1, caveolae protein, 22 kD
712139	−1.2738321	ADP-ribosylation factor-like 7
742685	−1.272916	disabled (Drosophila) homolog 2 (mitogen-responsive
		phosphoprotein)
811920	−1.2690713	interleukin 11 receptor, alpha
796542	−1.2625621	ets variant gene 5 (ets-related molecule)
486683	−1.2614406	Homo sapiens mRNA; cDNA DKFZp564J0323 (from clone
		DKFZp564J0323)
753071	−1.2529315	Homo sapiens cDNA: FLJ22528 fis, clone HRC12825
131839	−1.2372478	folate receptor 1 (adult)
300632	−1.2368481	hypothetical protein FLJ21044 similar to Rbig1
839736	−1.2271618	crystallin, alpha B
813265	−1.2230435	Homo sapiens mRNA; cDNA DKFZp564H1916 (from clone
		DKFZp564H1916)
1469377	−1.2127781	lipoma HMGIC fusion partner-like 2
490023	−1.2114805	hypothetical protein MGC2648
298122	−1.1962478	frizzled (Drosophila) homolog 7
72778	−1.1752838	caspase 7, apoptosis-related cysteine protease
160192	−1.1751869	ESTs, Weakly similar to 2004399A chromosomal protein
		[H. sapiens]
22917	−1.1590598	Homo sapiens mRNA; cDNA DKFZp761M0111 (from clone
		DKFZp761M0111)
877621	−1.1501074	nGAP-like protein
840266	−1.1476896	Homo sapiens cDNA: FLJ22667 fis, clone HSI08385
289760	−1.1390686	ESTs, Highly similar to T00391 hypothetical protein KIAA0612
		[H. sapiens]
811848	−1.1350073	hypothetical protein
1556433	−1.1222978	GRO3 oncogene
838478	−1.1175047	neurocalcin delta
1473274	−1.1172693	myosin regulatory light chain 2, smooth muscle isoform
1917449	−1.0894686	serum amyloid A4, constitutive
811088	−1.0851546	ephrin-B3
1554167	−1.0818834	hypothetical protein FLJ14529
67741	−1.0705249	PP2135 protein
2106144	−1.067765	regulated in glioma
2056139	−1.0673271	LIM domain protein
767202	−1.0654145	latent transforming growth factor beta binding protein 2
345034	−1.0600859	small inducible cytokine subfamily B (Cys-X-Cys), member 14
		(BRAK)
666879	−1.0463245	annexin A8
130201	−1.0401997	intercellular adhesion molecule 2
878836	−1.037352	secretory granule, neuroendocrine protein 1 (7B2 protein)
52419	−1.0368509	Friedreich ataxia region gene X123
291478	−1.0212528	runt-related transcription factor 3
781014	−1.0161379	suppression of tumorigenicity 5
132857	−1.0084069	Homo sapiens mRNA; cDNA DKFZp586N1323 (from clone
		DKFZp586N1323)
529843	−1.0036824	ESTs, Moderately similar to JC5238 galactosylceramide-like
		protein, GCP [H. sapiens]
2504881	−1.000863	signal transducer and activator of transcription 5A
69002	−0.9960916	PPAR(gamma) angiopoietin related protein
841308	−0.9953716	myosin, light polypeptide kinase
488404	−0.9880176	Homo sapiens clone TUA8 Cri-du-chat region mRNA
277571	−0.9841522	KIAA1706 protein
1871116	−0.9821709	Homo sapiens mRNA; cDNA DKFZp434C1714 (from clone
		DKFZp434C1714); partial cds
897963	−0.9775616	phosphatidic acid phosphatase type 2A
1584540	−0.9754693	Homo sapiens mRNA; cDNA DKFZp586M2022 (from clone
		DKFZp586M2022)
196435	−0.9665947	ESTs
140574	−0.9652218	small inducible cytokine subfamily D (Cys-X3-Cys), member 1
		(fractalkine, neurotactin)
740620	−0.96496	tropomyosin 2 (beta)
1473471	−0.9623482	KIAA0194 protein
1635320	−0.9586226	amiloride-sensitive cation channel 2, neuronal
416959	−0.957248	nuclear factor I/B
814798	−0.9559895	aldehyde dehydrogenase 1 family, member A3
823871	−0.9429443	SPARC-like 1 (mast9, hevin)
303109	−0.9414602	purinergic receptor (family A group 5)
270826	−0.9389651	Homo sapiens cDNA FLJ13329 fis, clone OVARC1001795
360254	−0.9286811	cysteine-rich, angiogenic inducer, 61
66491	−0.9280245	plasmolipin
814316	−0.9276916	ribosomal protein L13
153760	−0.9227865	EphB1
811149	−0.9216006	chromosome 9 open reading frame 3
786069	−0.9203158	beta-site APP-cleaving enzyme
208718	−0.9190244	annexin A1
416676	−0.9140494	pellino (Drosophila) homolog 1
248631	−0.9106505	aminomethyltransferase (glycine cleavage system protein T)
76182	−0.9106484	hypothetical protein DKFZp761F241
756708	−0.910505	potassium intermediate/small conductance calcium-activated
		channel, subfamily N, member 4
712401	−0.9068788	phosphoinositide-3-kinase, catalytic, delta polypeptide
625399	−0.9066615	hypothetical protein similar to beta-transducin family
753038	−0.893161	kinesin family member C3
162308	−0.8910356	ESTs
796181	−0.8888496	growth arrest-specific 6
133236	−0.8888316	RNA binding motif protein, X chromosome
415816	−0.8887425	ESTs
323780	−0.8879854	Homo sapiens cDNA FLJ11177 fis, clone PLACE1007402
1493218	−0.884795	hypothetical protein FLJ22297
1636166	−0.8845211	KIAA0668 protein
1856063	−0.8833091	tweety (Drosophila) homolog 1
34093	−0.8800259	EST
2028722	−0.8800075	osteoblast specific factor 2 (fasciclin I-like)
811837	−0.8764231	eukaryotic translation elongation factor 1 alpha 1
628955	−0.8761473	forkhead box O1A (rhabdomyosarcoma)
884462	−0.8743987	Down syndrome critical region gene 1
306798	−0.8718483	NGFI-A binding protein 1 (EGR1 binding protein 1)
882248	−0.8700731	transgelin
770935	−0.8700104	hypothetical protein FLJ13511
41208	−0.865227	bone morphogenetic protein 1
768571	−0.8572018	SRY (sex determining region Y)-box 8
781017	−0.8526926	early growth response 2 (Krox-20 (Drosophila) homolog)
811837	−0.848137
815737	−0.8444322	ATP synthase, H+ transporting, mitochondrial F1 complex,
		alpha subunit, isoform 1, cardiac muscle
814826	−0.8443265	ESTs
767164	−0.842198	ESTs, Weakly similar to MUC2_HUMAN MUCIN 2
		PRECURSOR [H. sapiens]
71087	−0.8416951	v-maf musculoaponeurotic fibrosarcoma (avian) oncogene
		family, protein F
283023	−0.8413949	chemokine (C-X3-C) receptor 1
160609	−0.8405669	ESTs
814443	−0.8385965	hypothetical protein MGC3232
142259	−0.8376566	tumor necrosis factor alpha-inducible cellular protein containing
		leucine zipper domains; Huntingtin interacting protein L;
		transcrption factor IIIA-interacting protein
990881	−0.8335353
970590	−0.8333968	Homo sapiens mRNA; cDNA DKFZp434A115 (from clone
		DKFZp434A115)
470393	−0.830751	matrix metalloproteinase 7 (matrilysin, uterine)
772913	−0.8306579	calreticulin
741139	−0.8299902	eyes absent (Drosophila) homolog 2
27769	−0.8298821	ESTs
544639	−0.8275232	ESTs
1587710	−0.8252065	period (Drosophila) homolog 1
757191	−0.8247438	ESTs
80344	−0.8243418	interleukin 7 receptor
1635062	−0.8243024	DKFZP586A011 protein
119290	−0.8224756	cortic al thymocyte receptor (X. laevis CTX) like
161456	−0.8215502	serum amyloid A1
1909935	−0.8169271	ESTs
1257131	−0.8163443	ESTs
868396	−0.808677	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase
		activation protein, eta polypeptide
1609665	−0.8086161	BarH-like homeobox 2
2016775	−0.8063264	G protein-coupled receptor, family C, group 5, member B
796475	−0.8041136	four and a half LIM domains 3
1555924	−0.8025163	CSR1 protein
416434	−0.8006527	SCN Circadian Oscillatory Protein (SCOP)
322561	−0.7970805	ribosomal protein L31
132711	−0.7962294	Kruppel-like factor 5 (intestinal)
70245	−0.795375	Homo sapiens mRNA full length insert cDNA clone
		EUROIMAGE 50374
283124	−0.7933772	ESTs, Moderately similar to LONG-CHAIN FATTY ACID
		TRANSPORT PROTEIN [M. musculus]
281190	−0.7927001	ESTs
250883	−0.7925068	ubiquitin-activating enzyme E1-like
346545	−0.7887371	laminin, beta 1
1878409	−0.7869766	catechol-O-methyltransferase
530958	−0.7809384	smoothened (Drosophila) homolog
40027	−0.7779473	ESTs
788136	−0.7778375	phosphodiesterase 4B, cAMP-specific (dunce (Drosophila)-
		homolog phosphodiesterase E4)
1626304	−0.7769866	spinal cord-derived growth factor-B
1474337	−0.7766266	phosphorylase, glycogen; brain
85840	−0.7754435	nicotinamide N-methyltransferase
290378	−0.7751825	podocalyxin-like
2243051	−0.7736287	kallikrein 8 (neuropsin/ovasin)
813256	−0.7731864	ATP-binding cassette, sub-family B (MDR/TAP), member 1
47043	−0.7729643	tensin
343695	−0.7706809	hypothetical protein FLJ10875
491403	−0.7700599	tumor necrosis factor receptor superfamily, member 1B
767765	−0.7691523	GTP-binding protein overexpressed in skeletal muscle
681992	−0.7691299	Homo sapiens cDNA FLJ13384 fis, clone PLACE1001062,
		highly similar to Homo sapiens mRNA for lysine-ketoglutarate
		reductase/saccharopine dehydrogenase
505864	−0.7677235	RalGDS-like gene
139660	−0.7677153	ESTs
869450	−0.7659922	ribosomal protein L11
162308	−0.7654139
209537	−0.763749	zinc finger protein 221
753162	−0.7617972	KIAA0603 gene product
810728	−0.7607171	hypothetical gene ZD52F10
366591	−0.7595643	T-cell lymphoma invasion and metastasis 2
488258	−0.7574184	collagen, type XVI, alpha 1
32489	−0.7571259	hypothetical protein DKFZp566A1524
1519147	−0.7548183
418159	−0.7545888	synaptogyrin 1
80727	−0.7538606	receptor tyrosine kinase-like orphan receptor 1
593023	−0.7516846	dystrobrevin, beta
586803	−0.7423407	placental growth factor, vascular endothelial growth factor-
		related protein
188335	−0.7399294	egf-like module containing, mucin-like, hormone receptor-like
		sequence 2
1161775	−0.7380353	villin 1
490668	−0.7364434	Homo sapiens mRNA; cDNA DKFZp586B211 (from clone
		DKFZp586B211)
1474900	−0.736252	keratin 15
378813	−0.7346408	secretory leukocyte protease inhibitor (antileukoproteinase)
1630990	−0.7312981	ribosomal protein L29
280907	−0.7307519	Kruppel-type zinc finger protein
742562	−0.730047	chromosome 16 open reading frame 5
73252	−0.7283898	3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 (soluble)
26566	−0.7278186	protein-O-mannosyltransferase 1
1471829	−0.7275378	uncharacterized hypothalamus protein HSMNP1
289428	−0.7270494	neurotrophic tyrosine kinase, receptor, type 2
898092	−0.7267434	connective tissue growth factor
34150	−0.7263513	ESTs
24958	−0.7225195	Homo sapiens mRNA; cDNA DKFZp434C2016 (from clone
		DKFZp434C2016)
725680	−0.7197488	transcription factor AP-2 gamma (activating enhancer-binding
		protein 2 gamma)
77972	−0.7194713	complement component 3
1686766	−0.7192745	Rag D protein
471196	−0.7192268	integral membrane protein 3
431231	−0.7182897	EGF-containing fibulin-like extracellular matrix protein 2
1908834	−0.7177051	ubiquitin A-52 residue ribosomal protein fusion product 1
207735	−0.7167416	serine (or cysteine) proteinase inhibitor, clade A (alpha-1
		antiproteinase, antitrypsin), member 1
754157	−0.7165332	Homo sapiens mRNA; cDNA DKFZp434K2172 (from clone
		DKFZp434K2172)
35828	−0.7163689	diphtheria toxin receptor (heparin-binding epidermal growth
		factor-like growth factor)
1946448	−0.7150027	caveolin 2
470148	−0.712917	ESTs
840944	−0.7099353	early growth response 1
809784	−0.7095414	kallikrein 6 (neurosin, zyme)
877827	−0.7093855	ribosomal protein S27a
32493	−0.7093777	integrin, alpha 6
813520	−0.7092422	EphB3
782501	−0.7086066	hypothetical protein PP1665
27544	−0.708383	prominin (mouse)-like 1
184022	−0.7070266	amyloid beta (A4) precursor protein-binding, family B, member
		1 (Fe65)
323238	−0.7042807	GRO1 oncogene (melanoma growth stimulating activity, alpha)
488956	−0.70192	CUG triplet repeat, RNA-binding protein 2
1926246	−0.701769	ESTs, Moderately similar to T46371 hypothetical protein
		DKFZp434P1018.1 [H. sapiens]
325365	−0.7012106	HIV-1 rev binding protein 2
221846	−0.6982802	checkpoint suppressor 1
1870305	−0.6958213	heat shock 27 kD protein 2
277044	−0.6947855	KIAA1183 protein
503335	−0.6944661	hypothetical protein FLJ11196
757873	−0.6940266	cyclin-dependent kinase 5, regulatory subunit 1 (p35)
2306682	−0.6934667	A kinase (PRKA) anchor protein (yotiao) 9
1864302	−0.6932327	E74-like factor 5 (ets domain transcription factor)
843070	−0.6925728	nucleoporin 88 kD
812975	−0.6921755	KIAA0172 protein
46129	−0.6919169	ESTs, Highly similar to T17245 hypothetical protein
		DKFZp586J0917.1 [H. sapiens]
270917	−0.6918383	secreted frizzled-related protein 1
789382	−0.6898974	Notch (Drosophila) homolog 4
611481	−0.6894079	HMG-box transcription factor TCF-3
35300	−0.688788	KIAA0869 protein
50892	−0.6887497	Homo sapiens, clone MGC: 9913 IMAGE: 3870821, mRNA,
		complete cds
366100	−0.6885372	matrilin 2
345056	−0.6863529	KIAA1404 protein
2783721	−0.6854649	cholinergic receptor, nicotinic, beta polypeptide 1 (muscle)
178137	−0.6839022	ribosomal protein L34
1626996	−0.682449	c-fos induced growth factor (vascular endothelial growth factor
		D)
188388	−0.6824191	integrin, alpha 10
133518	−0.6817662	microtubule-associated protein, RP/EB family, member 2
839796	−0.6807912	candidate tumor suppressor p33 ING1 homolog
726582	−0.6807781	actin-related protein 3-beta
50586	−0.6794282	KIAA1545 protein
491763	−0.679034	interleukin 1, beta
52096	−0.6789228	platelet-derived growth factor receptor, alpha polypeptide
263716	−0.6767498	collagen, type VI, alpha 1
2095066	−0.676021	alcohol dehydrogenase 1C (class I), gamma polypeptide
1475738	−0.6753091	ribosomal protein S25
41869	−0.6747514	hypothetical protein FLJ11017
1350439	−0.6740833	KIAA0015 gene product
502689	−0.6739476	Homo sapiens clone HH409 unknown mRNA
773373	−0.6730112	hypothetical protein MGC14258
308539	−0.6726187	Homo sapiens cDNA FLJ12777 fis, clone NT2RP2001720
343760	−0.6724144	SH3 domain binding glutamic acid-rich protein like 2
769959	−0.6720196	collagen, type IV, alpha 2
2252954	−0.6687686	enhancer of filamentation 1 (cas-like docking; Crk-associated
		substrate related)
70201	−0.6675012	mitochondrial solute carrier
505243	−0.6671218	inositol 1,4,5-triphosphate receptor, type 2
897731	−0.6670507	latrophilin
296880	−0.6655878	membrane protein, palmitoylated 1 (55 kD)
1486082	−0.6635259	heparin-binding growth factor binding protein
1470278	−0.6633411	hypothetical protein FLJ21841
177665	−0.6624986
725152	−0.6591675	hypothetical protein DKFZp762A227
247616	−0.6585351	lipoma HMGIC fusion partner
752668	−0.65723	KIAA0440 protein
837870	−0.657186	proline arginine-rich end leucine-rich repeat protein
744918	−0.6552361	Homo sapiens mRNA; cDNA DKFZp761I0911 (from clone
		DKFZp761I0911)
39600	−0.6540275	adenylate kinase 5
795288	−0.6528792	ubiquitin specific protease 4 (proto-oncogene)
1665444	−0.651994	tumor endothelial marker 1 precursor
774078	−0.6508021	leiomodin 1 (smooth muscle)
415233	−0.6506593	ribosomal protein L37a
307029	−0.6500872	ribosomal protein L26
78946	−0.648366	Homo sapiens pyruvate dehydrogenase kinase 4 mRNA, 3′
		untranslated region, partial sequence
785733	−0.6476493	hypothetical protein FLJ12892
415415	−0.646492	EST, Moderately similar to RL1X_HUMAN 60S RIBOSOMAL
		PROTEIN L18A [H. sapiens]
858167	−0.6453859	fatty-acid-Coenzyme A ligase, long-chain 4
823714	−0.642903	nuclear receptor co-repressor/HDAC3 complex subunit
193913	−0.6425581	v-yes-1 Yamaguchi sarcoma viral related oncogene homolog
220395	−0.6418175	hypothetical protein FLJ23293 similar to ARL-6 interacting
		protein-2
840942	−0.6383764	major histocompatibility complex, class II, DP beta 1
725308	−0.6371261	ras inhibitor
1492147	−0.636656	ribosomal protein S4, X-linked
1466893	−0.6364598	ESTs
75078	−0.6362307	ESTs
796152	−0.6356106	Homo sapiens cDNA FLJ11685 fis, clone HEMBA1004934
190059	−0.634814	guanine nucleotide binding protein (G protein), gamma 7
840511	−0.6341661	vimentin
81409	−0.6338327	GABA(A) receptor-associated protein like 1
745490	−0.6329354	hypothetical protein FLJ20607
530036	−0.6324794	hypothetical protein FLJ13078
755855	−0.6298333	solute carrier family 25 (mitochondrial carrier; adenine
		nucleotide translocator), member 6
785538	−0.6289951	Homo sapiens mRNA; cDNA DKFZp434N2116 (from clone
		DKFZp434N2116)
2284803	−0.6265431	secretory carrier membrane protein 1
1623016	−0.6263561	EST
154472	−0.6253276	fibroblast growth factor receptor 1 (fms-related tyrosine kinase
		2, Pfeiffer syndrome)
774754	−0.6243946	catenin (cadherin-associated protein), beta 1 (88 kD)
1572298	−0.6228686	CD3Z antigen, zeta polypeptide (TiT3 complex)
2252417	−0.6222381	ribosomal protein S10
180803	−0.621787	inositol polyphosphate-1-phosphatase
683059	−0.6216483	Cdc42 effector protein 3
1577736	−0.6215965	epidermal growth factor (beta-urogastrone)
241489	−0.6212938	adrenergic, beta-2-, receptor, surface
2316441	−0.6206597	ras homolog gene family, member C
1712825	−0.6204409	ESTs
52724	−0.6199204	hypothetical protein FLJ20241
150897	−0.6188264	UDP-GlcNAc:betaGal beta-1,3-N-
		acetylglucosaminyltransferase 3
823851	−0.6182341	AE-binding protein 1
810057	−0.6178096	vasoactive intestinal peptide receptor 1
81316	−0.6176265	ESTs
298134	−0.6152731	frizzled (Drosophila) homolog 1
2028238	−0.6141182	KIAA0300 protein
1898758	−0.6126872	BCE-1 protein
250797	−0.6124667	hypothetical protein FLJ20038
754040	−0.610807	NS1-associated protein 1
1584628	−0.6102937	alpha-actinin-2-associated LIM protein
230910	−0.6096107
172783	−0.6088873	hypothetical protein FLJ10390
824799	−0.6054867	ART-4 protein
785967	−0.6049171	erythrocyte membrane protein band 4.1-like 2
342349	−0.603487	mitogen-activated protein kinase kinase kinase 14
67067	−0.6003961	Homo sapiens mRNA; cDNA DKFZp564O222 (from clone
		DKFZp564O222)
1533710	−0.5988282	ortholog of mouse integral membrane glycoprotein LIG-1
768007	−0.5983563	hypothetical protein
1707637	−0.5964339	ESTs
1634832	−0.5931096	class I cytokine receptor
1609625	−0.5920312	selectin P ligand
1592530	−0.5918818	mammalian inositol hexakisphosphate kinase 2
272706	−0.5914377	alpha2,3-sialyltransferase
897720	−0.5904719	trophinin
1472735	−0.5888169	metallothionein 1E (functional)
767641	−0.5881449	mitogen-activated protein kinase 8 interacting protein 2
1651906	−0.5863631	hypothetical protein FLJ23544
564801	−0.5824549	Homo sapiens cDNA: FLJ21409 fis, clone COL03924
248886	−0.5823315	rab3 GTPase-activating protein, non-catalytic subunit (150 kD)
250654	−0.5815576	secreted protein, acidic, cysteine-rich (osteonectin)
1968422	−0.5802058	Homo sapiens mRNA full length insert cDNA clone
		EUROIMAGE 1968422
712829	−0.5797871	LIM domain only 2 (rhombotin-like 1)
752837	−0.5794612	Homo sapiens mRNA for FLJ00074 protein, partial cds
346902	−0.5794362	ESTs, Weakly similar to ALU2_HUMAN ALU SUBFAMILY SB
		SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
782193	−0.5788147	thioredoxin
358531	−0.5784457	v-jun avian sarcoma virus 17 oncogene homolog
2271240	−0.5782432	hypothetical protein
66532	−0.5773248	endothelin 3
120106	−0.5770131	caspase 1, apoptosis-related cysteine protease (interleukin 1,
		beta, convertase)
810552	−0.5768989	B-cell associated protein
770848	−0.5767154	ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY J
		SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
1032831	−0.5764161	gycosyltransferase
460403	−0.5739604	laminin, gamma 2 (nicein (100 kD), kalinin (105 kD), BM600
		(100 kD), Herlitz junctional epidermolysis bullosa))
489755	−0.5730453	a disintegrin and metalloproteinase domain 12 (meltrin alpha)
502753	−0.5724623	angiopoietin 2
68534	−0.5724394	Homo sapiens cDNA: FLJ22290 fis, clone HRC04405
854645	−0.5723062	CDC-like kinase 3
322024	−0.5714933	ESTs, Highly similar to T12495 hypothetical protein
		DKFZp434H071.1 [H. sapiens]
140071	−0.5708303	frizzled-related protein
788518	−0.5697316	peroxisomal membrane protein 3 (35 kD, Zellweger syndrome)
240752	−0.56913	hypothetical protein MGC14797
773487	−0.5686324	hypothetical protein MGC3032
1404774	−0.5685596	parathyroid hormone-like hormone
814815	−0.5675649	plakophilin 4
462939	−0.5662456	ESTs
240248	−0.5660209	transferrin
208001	−0.5640857	CD59 antigen p18-20 (antigen identified by monoclonal
		antibodies 16.3A5, EJ16, EJ30, EL32 and G344)
1909433	−0.5638242	DKFZP727C091 protein
1636360	−0.5629882	hypothetical protein FLJ14957
138242	−0.5621088	ESTs, Moderately similar to MAS2_HUMAN MANNAN-
		BINDING LECTIN SERINE PROTEASE 2 PRECURSOR
		[H. sapiens]
703964	−0.5620699	inositol polyphosphate phosphatase-like 1
1522734	−0.5618289	ESTs
843094	−0.5617478	ubiquitin-like 1 (sentrin)
491519	−0.561401	Homo sapiens clone 24775 mRNA sequence
377314	−0.561312	casein kinase 2, alpha prime polypeptide
208969	−0.561267	EST
788558	−0.5600825	KIAA1479 protein
785530	−0.5600048	integrin, alpha 1
1473131	−0.5594101	transducin-like enhancer of split 2, homolog of Drosophila
		E(sp1)
812959	−0.5591846	KIAA1638 protein
868169	−0.5584677	lipoprotein lipase
322233	−0.5578912	ribosomal protein, large, P0
50519	−0.5577761	aryl hydrocarbon receptor nuclear translocator-like
299720	−0.5565137
215000	−0.555725	vasoactive intestinal peptide receptor 1
51981	−0.5554908	ribosomal protein L7a
703541	−0.5534921	KIAA1858 protein
238907	−0.5534598	hypothetical protein, clone
		Telethon(Italy_B41)_Strait02270_FL142
415613	−0.5528761	DHHC1 protein
282404	−0.5528532	Homo sapiens mRNA for KIAA1671 protein, partial cds
344588	−0.55146	kallikrein 5
746373	−0.5513143	RNA polymerase I transcription factor RRN3
491186	−0.5507413	Homo sapiens cDNA: FLJ23131 fis, clone LNG08502
75059	−0.5504962	poly(A)-binding protein, cytoplasmic 1-like
345764	−0.5504113	special AT-rich sequence binding protein 1 (binds to nuclear
		matrix/scaffold-associating DNA's)
1577920	−0.5496944	ESTs
288748	−0.5493871	Homo sapiens, clone MGC: 5352 IMAGE: 3048106, mRNA,
		complete cds
810097	−0.5487174	Homo sapiens cDNA: FLJ21721 fis, clone COLF0381
755881	−0.5473964	aquaporin 5
1568391	−0.5467858	plastin 3 (T isoform)
290866	−0.5467613	v-raf-1 murine leukemia viral oncogene homolog 1
503671	−0.5461871	Homo sapiens cDNA FLJ14368 fis, clone HEMBA1001122
2388571	−0.5459823	A kinase (PRKA) anchor protein 8
739193	−0.5457998	cellular retinoic acid-binding protein 1
756372	−0.5447652	retinoic acid receptor responder (tazarotene induced) 2
53081	−0.5446617	ESTs
486179	−0.5443525	Homo sapiens cDNA FLJ10205 fis, clone HEMBA1004954
84464	−0.5426397	hypothetical protein FLJ12806
2213824	−0.5412089	protease inhibitor 3, skin-derived (SKALP)
1597813	−0.5406089	hypothetical protein PP1044
810358	−0.5403705	acyl-Coenzyme A dehydrogenase, very long chain
341759	−0.5403406	lung type-I cell membrane-associated glycoprotein
309449	−0.5401954	ribosomal protein S4, Y-linked
42681	−0.5388424	NY-REN-25 antigen
299720	−0.5388238	eukaryotic translation elongation factor 1 alpha 1
162775	−0.5385174	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 5 (RNA
		helicase, 68 kD)
490102	−0.5383385	TBP-associated factor 172
877835	−0.5382125	ribosomal protein L35
299720	−0.5378801	eukaryotic translation elongation factor 1 alpha 1
1534493	−0.5376323	ESTs
595637	−0.5373697	Homo sapiens mRNA; cDNA DKFZp586N012 (from clone
		DKFZp586N012)
725622	−0.5370309	ESTs
233679	−0.5356625	hypothetical protein FLJ22362
785933	−0.5340762	sushi-repeat-containing protein, X chromosome
825356	−0.533771	Homo sapiens cDNA FLJ11997 fis, clone HEMBB1001458
767982	−0.533231	Homo sapiens, clone IMAGE: 4134852, mRNA, partial cds
277627	−0.5329107	Human SH3 domain-containing protein SH3P18 mRNA,
		complete cds
460126	−0.5320146	KIAA0819 protein
346688	−0.5315035	melanoma inhibitory activity
712023	−0.5302372	AT-binding transcription factor 1
24729	−0.5302207	cholinergic receptor, muscarinic 1
1590021	−0.5302114	ets variant gene 6 (TEL oncogene)
809998	−0.5297152
811779	−0.5291718	phosphoinositide-3-kinase, regulatory subunit, polypeptide 1
		(p85 alpha)
488130	−0.5289721	Homo sapiens cDNA FLJ20767 fis, clone COL06986
299720	−0.5284407
159462	−0.528299	serum constituent protein
1570427	−0.5280955	hypothetical protein MGC4309
2308346	−0.5268833	cyclin-dependent kinase 2
1881774	−0.5265891	KIAA1678
591055	−0.5258289	protein kinase C and casein kinase substrate in neurons 2
470128	−0.5253542	myosin IE
687990	−0.5253354	Rac/Cdc42 guanine exchange factor (GEF) 6
753620	−0.5248489	insulin-like growth factor binding protein 6
80374	−0.5236475	pyruvate dehydrogenase (lipoamide) alpha 1
878421	−0.5233873	transgelin 2
343079	−0.5224833	Homo sapiens mRNA; cDNA DKFZp761P0114 (from clone
		DKFZp761P0114)
284592	−0.5205573	PRO1659 protein
855061	−0.5203046	vascular endothelial growth factor B
183704	−0.5184644	Homo sapiens, clone MGC: 13446 IMAGE: 4275731, mRNA,
		complete cds
155896	−0.5182247	ORF
842939	−0.5172329	adenosine deaminase, RNA-specific, B1 (homolog of rat RED1)
685185	−0.5172158	reticulon 2
753301	−0.5171758	carcinoembryonic antigen-related cell adhesion molecule 1
		(biliary glycoprotein)
795178	−0.5169102	lactate dehydrogenase C
1911663	−0.5168962	ESTs
345023	−0.5166203	ESTs, Highly similar to T08701 hypothetical protein
		DKFZp564N123.1 [H. sapiens]
1631682	−0.5162406	peptidylprolyl isomerase E (cyclophilin E)
868308	−0.5157133	ribosomal protein S23
809998	−0.5144681	amylase, alpha 2A; pancreatic
771004	−0.5144276	KIAA1201 protein
842896	−0.5137089	hypothetical protein DKFZp762L0311
714213	−0.5129593	tumor necrosis factor receptor superfamily, member 6
197056	−0.5128128	ESTs
415191	−0.512457	KIAA0161 gene product
2306752	−0.5123647	stathmin-like 2
469306	−0.5113377	gastrin-releasing peptide
824602	−0.5107682	interferon, gamma-inducible protein 16
307687	−0.5106552	protease, serine, 16 (thymus)
1637296	−0.5105214	ribosomal protein S24
1358393	−0.5090372	mitogen-activated protein kinase kinase 3
504940	−0.508056
713839	−0.5080365	transcription factor AP-4 (activating enhancer-binding protein 4)
220293	−0.5078291	Homo sapiens cDNA: FLJ21800 fis, clone HEP00618
125342	−0.5078237	SUMO-1-specific protease
1601845	−0.5074894	Ca2+-promoted Ras inactivator
240620	−0.5065007	vascular Rab-GAP/TBC-containing
43679	−0.5063146	ESTs
825013	−0.505654	acidic protein rich in leucines
2116188	−0.5046972	histone deacetylase 5
161998	−0.5044691	hypothetical protein FLJ23138
83999	−0.5044612	Human DNA sequence from clone 889N15 on chromosome
		Xq22.1-22.3. Contains part of the gene for a novel protein
		similar to X. laevis Cortical Thymocyte Marker CTX, the
		possibly alternatively spliced gene for 26S Proteasome subunit
		p28 (Ankyrin repeat prote
593840	−0.5033966	DKFZP564K1964 protein
51448	−0.5031992	activating transcription factor 3
383501	−0.502319	regulator of G-protein signalling 9
2018423	−0.501705	death-associated protein kinase 2
796984	−0.5010588	cytochrome b-245, beta polypeptide (chronic granulomatous
		disease)
1160723	−0.5005952	LIM domain kinase 2
414999	−0.5002542	ets variant gene 4 (E1A enhancer-binding protein, E1AF)
770212	−0.4981295	chitinase 3-like 1 (cartilage glycoprotein-39)
48518	−0.4966991	ATP-binding cassette, sub-family A (ABC1), member 5
85634	−0.4961026	complement component 1, s subcomponent
341763	−0.4953701	caspase 5, apoptosis-related cysteine protease
812161	−0.4948424	ESTs
1417886	−0.4941304	hypothetical protein FLJ23239
1500815	−0.4934665	Homo sapiens cDNA: FLJ22130 fis, clone HEP19632
868400	−0.4928479	glutaminyl-tRNA synthetase
809894	−0.491862	acetyl-CoA synthetase
753745	−0.4917192	ESTs, Weakly similar to S57447 HPBRII-7 protein [H. sapiens]
85394	−0.4913773	phosphatidic acid phosphatase type 2B
134192	−0.4908497	ESTs
813698	−0.4898644	sprouty (Drosophila) homolog 2
253884	−0.4897811	Human BAC clone GS1-99H8
131012	−0.4897744	hypothetical protein FLJ10633
855755	−0.4897236	fibrillarin
1711456	−0.4896574	H factor (complement)-like 1
815142	−0.4881454	spastic ataxia of Charlevoix-Saguenay (sacsin)
2413337	−0.4879268	sortilin-related receptor, L(DLR class) A repeats-containing
327432	−0.4870045	semaphorin Y
1897944	−0.4855156	ESTs, Weakly similar to T00366 hypothetical protein KIAA0669
		[H. sapiens]

Example VI

Genes for Discriminating Between Normal and ADH (Non-Malignant) Versus DCIS and IDC (Malignant)

As shown in Table 5 below, 400 genes were identified as being able to discriminate between normal and ADH (non-malignant) versus DCIS and IDC (malignant).

TABLE 5
CloneID	Weight	Description
796469	1.4207633	HSPC150 protein similar to ubiquitin-conjugating enzyme
488964	1.3447179	H2A histone family, member O
1505038	1.3277637	hypothetical protein FLJ20171
1500000	1.2926116	H2B histone family, member B
1554549	1.2787033	hydroxyacyl glutathione hydrolase
812238	1.2664748	hypothetical protein MGC4692
35147	1.2581066	ESTs, Weakly similar to unnamed protein product
		[H. sapiens]
122077	1.2576139	putative membrane protein
788654	1.2573483	growth factor receptor-bound protein 2
595037	1.2486446	retinoic acid induced 3
565319	1.2155833	Homo sapiens mRNA; cDNA DKFZp564B1264 (from
		clone DKFZp564B1264)
283919	1.2112507	H2A histone family, member L
1917941	1.1872008	purine-rich element binding protein B
359887	1.1837896	translocase of inner mitochondrial membrane 17 (yeast)
		homolog A
471568	1.1673113	hematological and neurological expressed 1
290841	1.1670252	H2B histone family, member A
796694	1.1580364	baculoviral IAP repeat-containing 5 (survivin)
366132	1.1440486	succinate dehydrogenase complex, subunit C,
		integral membrane protein, 15 kD
823598	1.1425746	proteasome (prosome, macropain) 26S subunit,
		non-ATPase, 12
1323448	1.1309009	cysteine-rich protein 1 (intestinal)
810711	1.1074523	stearoyl-CoA desaturase (delta-9-desaturase)
741474	1.0870449	glucose phosphate isomerase
745606	1.0663136	hypothetical protein PP591
2054635	1.0613961	proteasome (prosome, macropain) subunit, alpha
		type, 7
178805	1.0513873	Human DNA sequence from clone RP5-850E9 on
		chromosome 20. Contains part of the gene for a
		novel C2H2 type zinc finger protein similar to
		Drosophila Scratch (Scrt), Slug and Xenopus
		Snail, a novel gene similar to Drosophila
		CG6762, STSs, GSSs and five CpG
347373	1.0454939	transcription elongation factor B (SIII),
		polypeptide 1 (15 kD, elongin C)
199403	1.0142329	lectin, galactoside-binding, soluble, 8 (galectin 8)
814054	1.0130821	KIAA0040 gene product
2029173	1.0094499	ESTs, Weakly similar to N-WASP [H. sapiens]
209066	1.0066096
782428	1.0008279	KIAA0250 gene product
769921	0.9944462	ubiquitin carrier protein E2-C
470061	0.9920108	seven in absentia (Drosophila) homolog 2
796723	0.9915885	Homo sapiens clone CDABP0014 mRNA
		sequence
1609836	0.9886168	glutamate-ammonia ligase (glutamine synthase)
2322367	0.9859632	reticulon 4
280375	0.9793036	PRO2000 protein
2016908	0.969649	ESTs, Weakly similar to CA13_HUMAN
		COLLAGEN ALPHA 1(III) CHAIN PRECURSOR
		[H. sapiens]
1858892	0.9669022	hypothetical protein MGC4825
46248	0.9628117	ADP-ribosyltransferase (NAD+; poly (ADP-ribose)
		polymerase)
2014034	0.9619198	methylene tetrahydrofolate dehydrogenase
		(NAD+ dependent), methenyltetrahydrofolate
		cyclohydrolase
898032	0.9547022	KIAA0097 gene product
725454	0.9476507	CDC28 protein kinase 2
79520	0.9457391	RAB2, member RAS oncogene family
810558	0.943041	proteasome (prosome, macropain) 26S subunit,
		ATPase, 4
272529	0.9423688	phosphomannomutase 2
122241	0.939204	proteasome (prosome, macropain) subunit, beta
		type, 2
469686	0.9381847	Ric (Drosophila)-like, expressed in many tissues
624667	0.9336899	CGI-92 protein
488202	0.932881	ESTs, Weakly similar to YZ28_HUMAN
		HYPOTHETICAL PROTEIN ZAP128 [H. sapiens]
825470	0.9274271	topoisomerase (DNA) II alpha (170 kD)
1640821	0.920874	ESTs, Weakly similar to I78885 serine/threonine-
		specific protein kinase [H. sapiens]
686552	0.9182272	golgi phosphoprotein 1
2016648	0.917373	Homo sapiens mRNA; cDNA DKFZp434N1728
		(from clone DKFZp434N1728)
1911343	0.9110591	RAB26, member RAS oncogene family
781097	0.9100493	reticulon 3
244801	0.908481	Rho guanine exchange factor (GEF) 11
754628	0.9061145	ESTs
1574058	0.9058211	1-acylglycerol-3-phosphate O-acyltransferase 2
		(lysophosphatidic acid acyltransferase, beta)
753299	0.9019921	hypothetical protein FLJ10504
811774	0.9014801	CGI-49 protein
595213	0.8978322	hypothetical protein
868128	0.8970146	JM4 protein
810124	0.8891272	platelet-activating factor acetylhydrolase, isoform
		Ib, gamma subunit (29 kD)
66406	0.8888639	hypothetical protein DKFZp762E1312
1636092	0.8841788	hypothetical protein FLJ20657
1869201	0.8825788	hypothetical protein MGC2745
625923	0.8821749	phosphoenolpyruvate carboxykinase 2
		(mitochondrial)
1492238	0.8804306	HSPC003 protein
731044	0.8716644	glutaredoxin 2
839682	0.8696528	ubiquitin-conjugating enzyme E2N (homologous
		to yeast UBC13)
951233	0.8614727	proteasome (prosome, macropain) subunit, beta
		type, 3
843195	0.8606568	phosphoserine phosphatase
288999	0.8593924	small protein effector 1 of Cdc42
51773	0.8588635	hypothetical protein MGC3077
209066	0.8582298	serine/threonine kinase 15
1474955	0.8573467	TATA box binding protein (TBP)-associated
		factor, RNA polymerase II, N, 68 kD (RNA-binding
		protein 56)
2043167	0.8551193	BCL2-associated athanogene 3
742707	0.8515067	ESTs, Weakly similar to MUC2_HUMAN MUCIN
		2 PRECURSOR [H. sapiens]
743589	0.8514377	ESTs, Weakly similar to T2D3_HUMAN
		TRANSCRIPTION INITIATION FACTOR TFIID
		135 KDA SUBUNIT [H. sapiens]
704414	0.8498631	small nuclear ribonucleoprotein polypeptides B
		and B1
2309073	0.8484971	frizzled (Drosophila) homolog 5
2052113	0.8477245	hypothetical protein FLJ10903
686172	0.846207	KIAA0008 gene product
150003	0.8447372	hypothetical protein FLJ13187
705064	0.8401441	transforming, acidic coiled-coil containing protein 3
1709791	0.8397779	BAI1-associated protein 1
1469425	0.8391993	SRY (sex determining region Y)-box 22
429799	0.8386406	hypothetical protein FLJ21939 similar to 5-
		azacytidine induced gene 2
729975	0.8385313	meningioma expressed antigen 5 (hyaluronidase)
1393018	0.8376676	general transcription factor IIIC, polypeptide 1
		(alpha subunit, 220 kD)
1492463	0.8360771	selenoprotein X, 1
2028949	0.8358024	hypothetical protein PRO1855
789012	0.8351735	fibulin 2
470124	0.8347241	RAD1 (S. pombe) homolog
1409509	0.8339967	troponin T1, skeletal, slow
1605426	0.8317254	hypothetical protein FLJ13352
44292	0.831599	Homo sapiens mRNA; cDNA DKFZp434C107
		(from clone DKFZp434C107)
1435003	0.8311727	tumor suppressing subtransferable candidate 1
503215	0.8286483	pilin-like transcription factor
504308	0.8199799	hypothetical protein FLJ10540
785707	0.8176557	protein regulator of cytokinesis 1
1500162	0.8155519	ESTs
149355	0.8134342	translocating chain-associating membrane
		protein
1845169	0.8131362	RAB35, member RAS oncogene family
869375	0.808792	isocitrate dehydrogenase 2 (NADP+),
		mitochondrial
1492426	0.8032542	chromosome 19 open reading frame 3
782513	0.8030042	interferon, alpha-inducible protein (clone IFI-6-16)
813281	0.8016742	WW domain-containing protein 1
814378	0.8015236	serine protease inhibitor, Kunitz type, 2
700792	0.8005506	cyclin-dependent kinase inhibitor 3 (CDK2-
		associated dual specificity phosphatase)
340558	0.7990715	actin related protein 2/3 complex, subunit 5 (16 kD)
842994	0.7983201	cathepsin Z
138189	0.7953361	Wolfram syndrome 1 (wolframin)
289978	0.7931469	ubiquitin-like 4
2019223	0.7893602	mitochondrial ribosomal protein L17
2110511	0.7863117	artemin
814528	0.7845635	Homo sapiens cDNA: FLJ22139 fis, clone
		HEP20959
1573251	0.7816689	peroxisomal long-chain acyl-coA thioesterase
773922	0.7799164	KIAA0005 gene product
172517	0.7779159	hippocalcin-like 1
564981	0.7745626	ESTs
1420370	0.7726877	biliverdin reductase B (flavin reductase (NADPH))
308466	0.771216	GTP-binding protein Sara
199645	0.769591	nicastrin
1422338	0.7690604	ribonucleotide reductase M2 polypeptide
1474424	0.7689082	Homo sapiens cDNA FLJ12758 fis, clone
		NT2RP2001328
813751	0.7665427	sialyltransferase 4C (beta-galactosidase alpha-
		2,3-sialytransferase)
131094	0.7626373	Homo sapiens cDNA: FLJ21587 fis, clone
		COL06946
842980	0.762412	developmentally regulated GTP-binding protein 1
212542	0.7585053	Homo sapiens cDNA FLJ12900 fis, clone
		NT2RP2004321
108425	0.7581954
811761	0.7578696	Nijmegen breakage syndrome 1 (nibrin)
241348	0.757138	prenylcysteine lyase
810725	0.7561061	ATPase, H+ transporting, lysosomal (vacuolar
		proton pump) 21 kD
1460110	0.7559869	proteasome (prosome, macropain) subunit, beta
		type, 5
120749	0.7545697	ESTs, Moderately similar to KIAA1215 protein
		[H. sapiens]
827171	0.7543905	ESTs
39884	0.7526496	IMP (inosine monophosphate) dehydrogenase 1
124298	0.7507816	microsomal glutathione S-transferase 3
753378	0.7492212	hypothetical protein FLJ22649 similar to signal
		peptidase SPC22/23
210862	0.7483198	acyl-Coenzyme A oxidase 1, palmitoyl
785766	0.7476331	hypothetical protein
1553306	0.7471557	proteasome (prosome, macropain) 26S subunit,
		non-ATPase, 11
470099	0.7443747	HT002 protein; hypertension-related calcium-
		regulated gene
83363	0.7435058	protein-L-isoaspartate (D-aspartate) O-
		methyltransferase
489351	0.7422879	hypothetical protein DKFZp566J2046
810612	0.7419597	S100 calcium-binding protein A11 (calgizzarin)
825585	0.741258	tubulin-specific chaperone e
1456348	0.7401571	N-acetylneuraminic acid phosphate synthase;
		sialic acid synthase
1473922	0.7399948	actin related protein 2/3 complex, subunit 3 (21 kD)
150314	0.739762	lysophospholipase I
897806	0.7388301	hypoxia-inducible factor 1, alpha subunit (basic
		helix-loop-helix transcription factor)
811585	0.738212	huntingtin (Huntington disease)
685516	0.7378926	putative G protein-coupled receptor
76605	0.7376829	nesca protein
1476053	0.7367106	RAD51 (S. cerevisiae) homolog (E coli RecA
		homolog)
221295	0.7342275	inhibitor of DNA binding 2, dominant negative
		helix-loop-helix protein
824879	0.7333071	hypothetical protein MGC11275
768570	0.732628	hypothetical protein FLJ11280
73009	0.731401	ESTs, Weakly similar to A43932 mucin 2
		precursor, intestinal [H. sapiens]
564492	0.7301895	mitochondrial carrier homolog 2
2017415	0.7281714	centromere protein A (17 kD)
788654	0.7244749
488505	0.7242619	accessory proteins BAP31/BAP29
824962	0.7238234	karyopherin alpha 2 (RAG cohort 1, importin
		alpha 1)
1616253	0.7231756	breast carcinoma amplified sequence 1
1435862	0.723081	antigen identified by monoclonal antibodies 12E7,
		F21 and O13
786067	0.7228184	cell division cycle 25B
2050827	0.7211304	proteasome (prosome, macropain) 26S subunit,
		ATPase, 5
248649	0.7210707	hypothetical protein FLJ13910
51532	0.7195798	ADP-ribosylation factor-like 6 interacting protein
727078	0.7184618	Homo sapiens cDNA: FLJ23602 fis, clone
		LNG15735
37708	0.7163849	hypothetical protein MGC3101
430235	0.7162503	H2B histone family, member Q
897770	0.715754
292936	0.7154295	hypothetical protein FLJ10468
365738	0.7152855	ESTs
845363	0.714201	non-metastatic cells 1, protein (NM23A)
		expressed in
809944	0.7139515	KIAA0310 gene product
1631699	0.7115561	valosin-containing protein
813629	0.7102574	YME1 (S. cerevisiae)-like 1
813410	0.7093173	polymerase (RNA) II (DNA directed) polypeptide
		K (7.0 kD)
826256	0.7092586	transmembrane 7 superfamily member 1
		(upregulated in kidney)
124331	0.7081481	cleavage and polyadenylation specific factors 5,
		25 kD subunit
770845	0.7068283	hexokinase 1
67765	0.7064266	carboxypeptidase M
207288	0.7058528	insulin induced gene 1
1639531	0.7033264	RAB27A, member RAS oncogene family
731023	0.7032815	WD repeat domain 5
756442	0.7016064	P450 (cytochrome) oxidoreductase
358162	0.6999211	protein predicted by clone 23627
782608	0.698569	mitochondrial ribosomal protein L9
509823	0.6982362	carcinoembryonic antigen-related cell adhesion
		molecule 6 (non-specific cross reacting antigen)
345787	0.6981453	highly expressed in cancer, rich in leucine heptad
		repeats
810402	0.6978141	hypothetical protein
744417	0.6975761	carnitine acetyltransferase
814306	0.6963874	tumor protein D52
41356	0.6961169	protein phosphatase 2, regulatory subunit B
		(B56), alpha isoform
813419	0.6951349	hydroxyacyl-Coenzyme A dehydrogenase, type II
629944	0.6950339	myosin VB
327506	0.6943362	Homo sapiens mRNA full length insert cDNA
		clone EUROIMAGE 327506
768064	0.6936336	cytochrome P450, subfamily I (aromatic
		compound-inducible), polypeptide 1
770992	0.693225
469383	0.6925975	chromosome 8 open reading frame 1
1492780	0.6923749	Homo sapiens cDNA FLJ14459 fis, clone
		HEMBB1002409
41569	0.691145	hypothetical protein FLJ12650
509588	0.6903363	TATA box binding protein (TBP)-associated
		factor, RNA polymerase II, J, 20 kD
144880	0.6902434	hypothetical protein from EUROIMAGE 1759349
789376	0.6883473	thioredoxin reductase 1
268946	0.6881593	WD40 protein Ciao1
810156	0.6879064	deoxythymidylate kinase (thymidylate kinase)
84295	0.6876167	interleukin 1 receptor antagonist
246800	0.6867481	hypothetical protein FLJ10803
589232	0.6865999	hypothetical protein FLJ11506
859761	0.6846134	poliovirus receptor-related 2 (herpesvirus entry
		mediator B)
431505	0.6840493	ESTs, Highly similar to A31026 probable
		membrane receptor protein [H. sapiens]
109863	0.683291	epithelial membrane protein 2
770355	0.6829507	lanosterol synthase (2,3-oxidosqualene-
		lanosterol cyclase)
344091	0.6818771	ESTs
813707	0.6814476	regulator of G-protein signalling 16
124781	0.6809199	squalene epoxidase
502774	0.6807524	hypothetical protein FLJ20623
825740	0.6805157	DKFZp434J1813 protein
1536006	0.6805004	ESTs
203003	0.6802818	non-metastatic cells 4, protein expressed in
785616	0.6800658	signal sequence receptor, alpha (translocon-
		associated protein alpha)
785840	0.6800437	SEC24 (S. cerevisiae) related gene family,
		member D
256619	0.6797698	hydroxysteroid (17-beta) dehydrogenase 7
2108077	0.6796871	CGI-112 protein
742595	0.6784804	cyclin-dependent kinase 5
1476065	0.6783519	stathmin 1/oncoprotein 18
68636	0.6778817	hypothetical protein MGC2477
564847	0.6770455	ESTs
744047	0.6748419	polo (Drosophila)-like kinase
897813	0.6741253	polyadenylate binding protein-interacting protein 1
823930	0.6738266	actin related protein 2/3 complex, subunit 1A (41 kD)
236034	0.673506	uncoupling protein 2 (mitochondrial, proton
		carrier)
743977	0.6729967	Homo sapiens mRNA for TL132
293727	0.6728542	hypothetical protein MGC861
590759	0.672734	sterol-C4-methyl oxidase-like
811024	0.6706275	bone marrow stromal cell antigen 2
785795	0.6683919	hypothetical protein FLJ12910
530310	0.6682042	KIAA0143 protein
1734309	0.666164	sperm associated antigen 4
1898619	0.6651268	hypothetical protein MGC15737
358267	0.6648183	EST, Moderately similar to AF119917 63
		PRO2831 [H. sapiens]
753400	0.6633015	CGI-204 protein
292770	0.6609782	Homo sapiens, clone IMAGE: 3627860, mRNA,
		partial cds
884425	0.6608337	chaperonin containing TCP1, subunit 5 (epsilon)
1696757	0.6599512	hypothetical protein KIAA1165
121251	0.6596925	hypothetical protein MGC5576
770785	0.658751	1,2-alpha-mannosidase IC
590774	0.657447	mitogen-activated protein kinase 13
969877	0.6564571	synaptosomal-associated protein, 25 kD
415102	0.6562436	cell division cycle 25C
120271	0.6562017	hypothetical protein MGC4692
713782	0.6552297	a disintegrin and metalloproteinase domain 15
		(metargidin)
49351	0.6551453	SEX gene
488642	0.6541915	ESTs, Weakly similar to I38022 hypothetical
		protein [H. sapiens]
343607	0.6510034	AD-015 protein
2306987	0.6501071	secreted and transmembrane 1
280249	0.64759	Kruppel-like factor 7 (ubiquitous)
752631	0.6473517	fibroblast growth factor receptor 3
		(achondroplasia, thanatophoric dwarfism)
489594	0.645574	hypothetical protein FLJ11565
773188	0.6448143	nuclear receptor subfamily 1, group D, member 2
2015517	0.6441737	hypothetical protein FLJ22237
343731	0.6424907
491524	0.6424448	mitochondrial ribosomal protein L13
824524	0.6424419	UDP-galactose transporter related
593431	0.6422897	ESTs, Moderately similar to CEGT_HUMAN
		CERAMIDE GLUCOSYLTRANSFERASE
		[H. sapiens]
812994	0.6420817	retinoid X receptor, alpha
1631735	0.6404771	Homo sapiens, clone IMAGE: 3604336, mRNA,
		partial cds
278531	0.6404612	cytochrome c oxidase subunit VIc
2302099	0.6386686	sialidase 3 (membrane sialidase)
454896	0.6384516	DnaJ (Hsp40) homolog, subfamily A, member 2
1456701	0.6383709	B-cell CLL/lymphoma 9
2055807	0.638184	protein kinase domains containing protein similar
		to phosphoprotein C8FW
1518402	0.6378481	KIAA1361 protein
810762	0.6371461	SNARE protein
124447	0.6363079	KIAA1184 protein
49273	0.635859	solute carrier family 27 (fatty acid transporter),
		member 4
365060	0.6350631	RAB11A, member RAS oncogene family
1591264	0.6337293	transaldolase 1
41698	0.6327738	progesterone binding protein
810316	0.6323393	very long-chain acyl-CoA synthetase; lipidosin
826363	0.6322533	lysophospholipase II
2011515	0.6319712	DKFZP586B0923 protein
770675	0.6315109	Homo sapiens cDNA: FLJ21323 fis, clone
		COL02374
1461477	0.6300096	Homo sapiens mRNA; cDNA DKFZp586I0324
		(from clone DKFZp586I0324)
366834	0.629867	envoplakin
1601947	0.6297475	cytochrome c oxidase subunit VIIa polypeptide 2
		(liver)
510575	0.6295917	hypothetical protein FLJ22087
503851	0.6291771	nuclear receptor co-repressor/HDAC3 complex
		subunit
810063	0.6286184	growth factor, erv1 (S. cerevisiae)-like
		(augmenter of liver regeneration)
754653	0.6277098	cadherin, EGF LAG seven-pass G-type receptor
		3, flamingo (I Drosophila) homolog
1518890	0.6251884	metallothionein-like 5, testis-specific (tesmin)
784105	0.6244805	ESTs
205049	0.6231646	protein kinase H11; small stress protein-like
		protein HSP22
325606	0.6225147	hypothetical protein MGC14353
760299	−1.8441097	dickkopf (Xenopus laevis) homolog 3
200814	−1.8295958	membrane metallo-endopeptidase (neutral
		endopeptidase, enkephalinase, CALLA, CD10)
1882697	−1.715818	peanut (Drosophila)-like 2
344720	−1.6567437	glycophorin C (Gerbich blood group)
1161564	−1.5877154	desmuslin
45099	−1.566311	regucalcin (senescence marker protein-30)
75859	−1.5303427	N-myc downstream-regulated gene 2
811920	−1.5255258	interleukin 11 receptor, alpha
1569187	−1.4872982	heparan sulfate (glucosamine) 3-O-
		sulfotransferase 4
796542	−1.4697418	ets variant gene 5 (ets-related molecule)
767202	−1.4573536	latent transforming growth factor beta binding
		protein 2
285377	−1.4496786	pellino (Drosophila) homolog 2
300632	−1.449587	hypothetical protein FLJ21044 similar to Rbig1
160192	−1.4231519	ESTs, Weakly similar to 2004399A chromosomal
		protein [H. sapiens ]
611532	−1.3689616	troponin I, skeletal, fast
813265	−1.3632094	Homo sapiens mRNA; cDNA DKFZp564H1916
		(from clone DKFZp564H1916)
1469377	−1.359583	lipoma HMGIC fusion partner-like 2
810002	−1.3553375	Homo sapiens, clone MGC: 19762
		IMAGE: 3636045, mRNA, complete cds
2056139	−1.3506352	LIM domain protein
377275	−1.3392122	ataxia-telangiectasia group D-associated protein
298122	−1.3364021	frizzled (Drosophila) homolog 7
72778	−1.3299927	caspase 7, apoptosis-related cysteine protease
841308	−1.3246996	myosin, light polypeptide kinase
377461	−1.3214357	caveolin 1, caveolae protein, 22 kD
1473274	−1.3200174	myosin regulatory light chain 2, smooth muscle
		isoform
1554167	−1.3141843	hypothetical protein FLJ14529
131839	−1.3048208	folate receptor 1 (adult)
67741	−1.3014364	PP2135 protein
132857	−1.280579	Homo sapiens mRNA; cDNA DKFZp586N1323
		(from clone DKFZp586N1323)
345670	−1.2805684	ESTs, Moderately similar to I59348 CCAAT
		binding transcription factor CBF subunit C - rat
		[R. norvegicus]
781014	−1.2659158	suppression of tumorigenicity 5
289760	−1.2610055	ESTs, Highly similar to T00391 hypothetical
		protein KIAA0612 [H. sapiens]
742685	−1.248683	disabled (Drosophila) homolog 2 (mitogen-
		responsive phosphoprotein)
52419	−1.2447753	Friedreich ataxia region gene X123
838478	−1.2349342	neurocalcin delta
839736	−1.2337192	crystallin, alpha B
1558675	−1.2313679	SRY (sex determining region Y)-box 10
796181	−1.2276581	growth arrest-specific 6
878836	−1.2200837	secretory granule, neuroendocrine protein 1 (7B2
		protein)
130201	−1.2181641	intercellular adhesion molecule 2
1917449	−1.217371	serum amyloid A4, constitutive
22917	−1.2164705	Homo sapiens mRNA; cDNA DKFZp761M0111
		(from clone DKFZp761M0111)
1871116	−1.209237	Homo sapiens mRNA; cDNA DKFZp434C1714
		(from clone DKFZp434C1714); partial cds
823871	−1.2090693	SPARC-like 1 (mast9, hevin)
811837	−1.2030392
811848	−1.2011809	hypothetical protein
840266	−1.200789	Homo sapiens cDNA: FLJ22667 fis, clone
		HSI08385
753071	−1.2005994	Homo sapiens cDNA: FLJ22528 fis, clone
		HRC12825
2106144	−1.1719133	regulated in glioma
2504881	−1.1674204	signal transducer and activator of transcription 5A
811837	−1.157587	eukaryotic translation elongation factor 1 alpha 1
486683	−1.1548164	Homo sapiens mRNA; cDNA DKFZp564J0323
		(from clone DKFZp564J0323)
712139	−1.1491129	ADP-ribosylation factor-like 7
196435	−1.1475545	ESTs
877621	−1.1422087	nGAP-like protein
811088	−1.140941	ephrin-B3
322561	−1.1270333	ribosomal protein L31
712401	−1.1218827	phosphoinositide-3-kinase, catalytic, delta
		polypeptide
788234	−1.1061158	inhibitor of DNA binding 4, dominant negative
		helix-loop-helix protein
140574	−1.103064	small inducible cytokine subfamily D (Cys-X3-
		Cys), member 1 (fractalkine, neurotactin)
490023	−1.1020527	hypothetical protein MGC2648
1584540	−1.0933558	Homo sapiens mRNA; cDNA DKFZp586M2022
		(from clone DKFZp586M2022)
1556433	−1.0887923	GRO3 oncogene
47043	−1.0841886	tensin
303109	−1.0807576	purinergic receptor (family A group 5)
343760	−1.0803279	SH3 domain binding glutamic acid-rich protein
		like 2
248631	−1.0784377	aminomethyltransferase (glycine cleavage
		system protein T)
740620	−1.071175	tropomyosin 2 (beta)
529843	−1.0698218	ESTs, Moderately similar to JC5238
		galactosylceramide-like protein, GCP [H. sapiens]
990881	−1.0640807
80344	−1.0602825	interleukin 7 receptor
625399	−1.0594452	hypothetical protein similar to beta-transducin
		family
416676	−1.0568729	pellino (Drosophila) homolog 1
416959	−1.0566462	nuclear factor I/B
307029	−1.0497874	ribosomal protein L26
488404	−1.0484323	Homo sapiens clone TUA8 Cri-du-chat region
		mRNA
291478	−1.0400846	runt-related transcription factor 3
153760	−1.0340645	EphB1
119290	−1.025797	cortic al thymocyte receptor (X. laevis CTX) like
814443	−1.0250673	hypothetical protein MGC3232
757191	−1.0238476	ESTs
208718	−1.0229324	annexin A1
161456	−1.0220494	serum amyloid A1
1587710	−1.0209983	period (Drosophila) homolog 1
160609	−1.0208819	ESTs
593023	−1.0158099	dystrobrevin, beta
1878409	−1.013872	catechol-O-methyltransferase
781017	−1.0125987	early growth response 2 (Krox-20 (Drosophila)
		homolog)
753162	−1.0119485	KIAA0603 gene product
897963	−1.0075423	phosphatidic acid phosphatase type 2A
505864	−1.0033263	RalGDS-like gene
323780	−1.0027215	Homo sapiens cDNA FLJ11177 fis, clone
		PLACE1007402
343695	−1.002495	hypothetical protein FLJ10875
277571	−0.9977509	KIAA1706 protein
869450	−0.9934083	ribosomal protein L11
280907	−0.9932806	Kruppel-type zinc finger protein
290378	−0.9932643	podocalyxin-like
1635062	−0.9905245	DKFZP586A011 protein
270826	−0.9896888	Homo sapiens cDNA FLJ13329 fis, clone
		OVARC1001795
1257131	−0.9869928	ESTs

Example VII

Genes for Discriminating Between ADH and DCIS

As shown in Table 6 below, 350 genes were identified as being able to discriminate between ADH and DCIS. The actual data is shown in FIG. 3.

TABLE 6
CloneID	Weight	Description
1404774	−0.5685596	parathyroid hormone-like hormone
823871	−0.9429443	SPARC-like 1 (mast9, hevin)
1882697	−1.4318896	peanut (Drosophila)-like 2
140071	−0.5708303	frizzled-related protein
160192	−1.1751869	ESTs, Weakly similar to 2004399A chromosomal protein
		[H. sapiens]
796542	−1.2625621	ets variant gene 5 (ets-related molecule)
611532	−1.3158379	troponin I, skeletal, fast
1473274	−1.1172693	myosin regulatory light chain 2, smooth muscle isoform
469306	−0.5113377	gastrin-releasing peptide
2306697	−0.4494025	neuromedin B
132857	−1.0084069	Homo sapiens mRNA; cDNA DKFZp586N1323 (from clone
		DKFZp586N1323)
2504881	−1.000863	signal transducer and activator of transcription 5A
760299	−1.7010462	dickkopf (Xenopus laevis) homolog 3
293819	−0.4051233	oxidoreductase UCPA
130835	0.3209345	Homo sapiens, Similar to clone FLB3816, clone
		IMAGE: 3454380, mRNA
66532	−0.5773248	endothelin 3
2499829	−0.3619416	zinc finger protein 145 (Kruppel-like, expressed in
		promyelocytic leukemia)
85840	−0.7754435	nicotinamide N-methyltransferase
859359	−0.4669761	quinone oxidoreductase homolog
200814	−1.4325283	membrane metallo-endopeptidase (neutral endopeptidase,
		enkephalinase, CALLA, CD10)
825287	−0.2783909	tumor necrosis factor (ligand) superfamily, member 11
202577	−0.2283149	histamine N-methyltransferase
2014373	0.0232775	HNK-1 sulfotransferase
153760	−0.9227865	EphB1
377275	−1.3102234	ataxia-telangiectasia group D-associated protein
745490	−0.6329354	hypothetical protein FLJ20607
172783	−0.6088873	hypothetical protein FLJ10390
1558108	0.0044098	ATP-binding cassette, sub-family C (CFTR/MRP), member 8
1587710	−0.8252065	period (Drosophila) homolog 1
141731	−0.4531468
490484	−0.3388325	ESTs
504959	−0.1620065	Homo sapiens mRNA; cDNA DKFZp586G0321 (from clone
		DKFZp586G0321)
1609746	−0.4792809	vitelliform macular dystrophy (Best disease, bestrophin)
882248	−0.8700731	transgelin
1917449	−1.0894686	serum amyloid A4, constitutive
2119838	−0.3045374	a disintegrin-like and metalloprotease (reprolysin type) with
		thrombospondin type 1 motif, 8
841507	0.0247736	surfactant, pulmonary-associated protein A2
813265	−1.2230435	Homo sapiens mRNA; cDNA DKFZp564H1916 (from clone
		DKFZp564H1916)
767202	−1.0654145	latent transforming growth factor beta binding protein 2
1156538	0.2252628	potassium inwardly-rectifying channel, subfamily J, member
		11
39600	−0.6540275	adenylate kinase 5
1630990	−0.7312981	ribosomal protein L29
41208	−0.865227	bone morphogenetic protein 1
322561	−0.7970805	ribosomal protein L31
951008	−0.2221875	ESTs
841308	−0.9953716	myosin, light polypeptide kinase
119290	−0.8224756	cortic al thymocyte receptor (X. laevis CTX) like
344959	−0.0998837	gene for serine/threonine protein kinase
810331	−0.1389612	quiescin Q6
1161775	−0.7380353	villin 1
625399	−0.9066615	hypothetical protein similar to beta-transducin family
1470657	−0.3557985	deiodinase, iodothyronine, type II
160609	−0.8405669	ESTs
665356	−0.1575968	tumor necrosis factor receptor superfamily, member 11b
		(osteoprotegerin)
1584540	−0.9754693	Homo sapiens mRNA; cDNA DKFZp586M2022 (from clone
		DKFZp586M2022)
726779	−0.4459955	calponin 1, basic, smooth muscle
296123	−0.2814132	Homo sapiens PRO1851 mRNA, complete cds
190059	−0.634814	guanine nucleotide binding protein (G protein), gamma 7
1471829	−0.7275378	uncharacterized hypothalamus protein HSMNP1
2056139	−1.0673271	LIM domain protein
190753	−0.4423669	ESTs
1968422	−0.5802058	Homo sapiens mRNA full length insert cDNA clone
		EUROIMAGE 1968422
725390	−0.4620278	glutathione S-transferase pi
814826	−0.8443265	ESTs
878836	−1.037352	secretory granule, neuroendocrine protein 1 (7B2 protein)
27769	−0.8298821	ESTs
188388	−0.6824191	integrin, alpha 10
1597813	−0.5406089	hypothetical protein PP1044
1609625	−0.5920312	selectin P ligand
810981	−0.1805871	hypothetical protein FLJ20699
726703	−0.070084	Homo sapiens clone 23736 mRNA sequence
781014	−1.0161379	suppression of tumorigenicity 5
898222	0.1795078	Homo sapiens clone 24418 mRNA sequence
1475738	−0.6753091	ribosomal protein S25
1492144	−0.2356446	butyrophilin, subfamily 3, member A2
1492147	−0.636656	ribosomal protein S4, X-linked
1711456	−0.4896574	H factor (complement)-like 1
1871116	−0.9821709	Homo sapiens mRNA; cDNA DKFZp434C1714 (from clone
		DKFZp434C1714); partial cds
344720	−1.5196431	glycophorin C (Gerbich blood group)
45099	−1.3515907	regucalcin (senescence marker protein-30)
307029	−0.6500872	ribosomal protein L26
25763	−0.2725443	ankylosis, progressive (mouse) homolog
2502722	−0.3315871	loss of heterozygosity, 11, chromosomal region 2, gene A
1665444	−0.651994	tumor endothelial marker 1 precursor
165837	−0.3443143	translocase of inner mitochondrial membrane 22 (yeast)
		homolog
502518	−0.4342228	laminin, beta 2 (laminin S)
897963	−0.9775616	phosphatidic acid phosphatase type 2A
120138	0.1570107	J domain containing protein 1
78946	−0.648366	Homo sapiens pyruvate dehydrogenase kinase 4 mRNA, 3′
		untranslated region, partial sequence
990881	−0.8335353
859192	−0.2265317	vesicle-associated membrane protein 1 (synaptobrevin 1)
712023	−0.5302372	AT-binding transcription factor 1
855586	−0.3944697	nuclear receptor subfamily 3, group C, member 1
52419	−1.0368509	Friedreich ataxia region gene X123
432072	−0.4193898	nuclear factor of activated T-cells, cytoplasmic, calcineurin-
		dependent 1
1897947	−0.163146	surfactant, pulmonary-associated protein A2
727229	−0.2668972	mitogen-activated protein kinase kinase kinase 4
810358	−0.5403705	acyl-Coenzyme A dehydrogenase, very long chain
154600	−0.0683999	phospholipase C, delta 1
755855	−0.6298333	solute carrier family 25 (mitochondrial carrier; adenine
		nucleotide translocator), member 6
323780	−0.8879854	Homo sapiens cDNA FLJ11177 fis, clone PLACE1007402
230560	−0.1803944	ESTs
283173	−0.4293696	EBP50-PDZ interactor of 64 kD
265853	−0.3519023	Homo sapiens cDNA FLJ11298 fis, clone PLACE1009794
161456	−0.8215502	serum amyloid A1
184022	−0.7070266	amyloid beta (A4) precursor protein-binding, family B,
		member 1 (Fe65)
1636523	−0.1496249	glutathione S-transferase subunit 13 homolog
795730	−0.2892776	signal transduction protein (SH3 containing)
1631682	−0.5162406	peptidylprolyl isomerase E (cyclophilin E)
811837	−0.848137
854763	−0.0493902	Homo sapiens cDNA FLJ11341 fis, clone PLACE1010786
50562	−0.0943363	chromosome 8 open reading frame 4
46843	−0.1736687	neuronal Shc adaptor homolog
178137	−0.6839022	ribosomal protein L34
1662279	−0.2290724	plakophilin 1 (ectodermal dysplasia/skin fragility syndrome)
1635062	−0.8243024	DKFZP586A011 protein
293916	−0.3671832	FKBP-associated protein
415613	−0.5528761	DHHC1 protein
80344	−0.8243418	interleukin 7 receptor
1602798	−0.4300808	choline kinase-like
1910516	−0.2845842	ESTs
740620	−0.96496	tropomyosin 2 (beta)
277627	−0.5329107	Human SH3 domain-containing protein SH3P18 mRNA,
		complete cds
854696	0.008949	siah binding protein 1; FBP interacting repressor; pyrimidine
		tract binding splicing factor; Ro ribonucleoprotein-binding
		protein 1
45578	−0.1295485	mitogen-activated protein kinase kinase 6
950710	−0.346361	propionyl Coenzyme A carboxylase, alpha polypeptide
768043	−0.4005598	ECSIT
308539	−0.6726187	Homo sapiens cDNA FLJ12777 fis, clone NT2RP2001720
595637	−0.5373697	Homo sapiens mRNA; cDNA DKFZp586N012 (from clone
		DKFZp586N012)
143661	−0.4713778	netrin 4
248631	−0.9106505	aminomethyltransferase (glycine cleavage system protein T)
826622	0.1339287	KIAA0430 gene product
51981	−0.5554908	ribosomal protein L7a
811848	−1.1350073	hypothetical protein
1533710	−0.5988282	ortholog of mouse integral membrane glycoprotein LIG-1
2017756	−0.2549438	homolog of yeast MOG1
1637296	−0.5105214	ribosomal protein S24
50586	−0.6794282	KIAA1545 protein
877835	−0.5382125	ribosomal protein L35
773319	−0.285447	ribosomal protein S6 kinase, 70 kD, polypeptide 1
2014888	−0.2871529	sushi-repeat protein
767495	−0.0366213	GLI-Kruppel family member GLI3 (Greig
		cephalopolysyndactyly syndrome)
774078	−0.6508021	leiomodin 1 (smooth muscle)
868400	−0.4928479	glutaminyl-tRNA synthetase
240620	−0.5065007	vascular Rab-GAP/TBC-containing
1588791	−0.1606643	O-6-methylguanine-DNA methyltransferase
472186	−0.2687871	RAB32, member RAS oncogene family
725143	−0.3410957	hypothetical protein FLJ22418
714472	−0.3677387	KIAA0397 gene product
1854648	0.0089186	hemopexin
855029	0.076972	Ac-like transposable element
197727	−0.3906866	phosphatidylethanolamine N-methyltransferase
1623016	−0.6263561	EST
813841	0.0885625	plasminogen activator, tissue
2783721	−0.6854649	cholinergic receptor, nicotinic, beta polypeptide 1 (muscle)
549933	−0.3547881	interleukin 8
280907	−0.7307519	Kruppel-type zinc finger protein
796181	−0.8888496	growth arrest-specific 6
415233	−0.6506593	ribosomal protein L37a
811920	−1.2690713	interleukin 11 receptor, alpha
415415	−0.646492	EST, Moderately similar to RL1X_HUMAN 60S RIBOSOMAL
		PROTEIN L18A [H. sapiens]
2018807	−0.2989936	KIAA0468 gene product
154999	−0.3876757	hypothetical protein FLJ21007
68557	0.0637586	fatty acid binding protein 1, liver
647763	−0.1436566	ESTs
1568967	−0.2938468	ESTs
210717	−0.4522432	syndecan 2 (heparan sulfate proteoglycan 1, cell surface-
		associated, fibroglycan)
1350439	−0.6740833	KIAA0015 gene product
684582	−0.0089016	tryptophanyl tRNA synthetase 2 (mitochondrial)
122394	−0.049399	guanine nucleotide binding protein (G protein), alpha 15 (Gq
		class)
213136	−0.1139004	BTG family, member 2
625458	−0.2394796	hypothetical protein MGC3234
811162	−0.3821116	fibromodulin
1926246	−0.701769	ESTs, Moderately similar to T46371 hypothetical protein
		DKFZp434P1018.1 [H. sapiens]
1554167	−1.0818834	hypothetical protein FLJ14529
811088	−1.0851546	ephrin-B3
72778	−1.1752838	caspase 7, apoptosis-related cysteine protease
220293	−0.5078291	Homo sapiens cDNA: FLJ21800 fis, clone HEP00618
1569187	−1.2971252	heparan sulfate (glucosamine) 3-O-sulfotransferase 4
866866	−0.4801351	Ras association (RalGDS/AF-6) domain family 1
81316	−0.6176265	ESTs
1161564	−1.3891189	desmuslin
898044	−0.4691863	metallocarboxypeptidase CPX-1
293001	−0.4472585	hypothetical protein DKFZp434E2318
1570502	−0.3314609	Homo sapiens cDNA FLJ12936 fis, clone NT2RP2005018
839796	−0.6807912	candidate tumor suppressor p33 ING1 homolog
380883	−0.4438655	Homo sapiens cDNA FLJ10158 fis, clone HEMBA1003463
180561	−0.3250633	glutathione S-transferase M4
869450	−0.7659922	ribosomal protein L11
47043	−0.7729643	tensin
810463	−0.0829995	DKFZP566O084 protein
149539	0.4138942	KIAA1700
200354	−0.0613983	thymidine kinase 2, mitochondrial
771173	0.1757755	mitochondrial ribosomal protein S21
270826	−0.9389651	Homo sapiens cDNA FLJ13329 fis, clone OVARC1001795
810017	−0.1076821	plasminogen activator, urokinase receptor
809838	0.0956351
344168	−0.386185	polymerase (DNA directed), lambda
785967	−0.6049171	erythrocyte membrane protein band 4.1-like 2
511831	−0.2912672	hypothetical protein MGC12936
282404	−0.5528532	Homo sapiens mRNA for KIAA1671 protein, partial cds
730036	−0.079736	Mad4 homolog
298231	−0.3550893	gamma-aminobutyric acid (GABA) B receptor, 1
2106144	−1.067765	regulated in glioma
743880	−0.3262292	KIAA0263 gene product
268234	−0.1535073	Dmx-like 1
280776	−0.2922639	acyl-Coenzyme A dehydrogenase, C-2 to C-3 short chain
212078	−0.1831462	integrin, alpha 1
731308	0.5371204	citrate synthase
774471	−0.1753902	laminin, beta 1
811837	−0.8764231	eukaryotic translation elongation factor 1 alpha 1
714437	0.0258281	sema domain, immunoglobulin domain (Ig), transmembrane
		domain (TM) and short cytoplasmic domain, (semaphorin) 4B
416959	−0.957248	nuclear factor I/B
681992	−0.7691299	Homo sapiens cDNA FLJ13384 fis, clone PLACE1001062,
		highly similar to Homo sapiens mRNA for lysine-
		ketoglutarate reductase/saccharopine dehydrogenase
130201	−1.0401997	intercellular adhesion molecule 2
363144	0.1937891	transcription factor AP-2 beta (activating enhancer-binding
		protein 2 beta)
857874	−0.3703645	transforming growth factor beta-activated kinase-binding
		protein 1
377461	−1.2798035	caveolin 1, caveolae protein, 22 kD
156363	0.2685238	hypothetical protein FLJ12934
589115	−0.0115547	matrix metalloproteinase 1 (interstitial collagenase)
241489	−0.6212938	adrenergic, beta-2-, receptor, surface
586725	0.0683397	protein phosphatase 2, regulatory subunit B (B56), beta
		isoform
283124	−0.7933772	ESTs, Moderately similar to LONG-CHAIN FATTY ACID
		TRANSPORT PROTEIN [M. musculus]
307328	−0.4022704	hypothetical protein FLJ10948
37449	−0.3539978	GAS2-related on chromosome 22
50892	−0.6887497	Homo sapiens, clone MGC: 9913 IMAGE: 3870821, mRNA,
		complete cds
1897944	−0.4855156	ESTs, Weakly similar to T00366 hypothetical protein
		KIAA0669 [H. sapiens]
377314	−0.561312	casein kinase 2, alpha prime polypeptide
220851	−0.0351418	crystallin, alpha A
322233	−0.3025167
586803	−0.7423407	placental growth factor, vascular endothelial growth factor-
		related protein
343695	−0.7706809	hypothetical protein FLJ10875
414999	−0.5002542	ets variant gene 4 (E1A enhancer-binding protein, E1AF)
813823	−0.4463267	lumican
178825	−0.1525189	neurogranin (protein kinase C substrate, RC3)
85582	−0.0716296	target of myb1 (chicken) homolog-like 2
753620	−0.5248489	insulin-like growth factor binding protein 6
1899338	−0.066168	mannosidase, alpha, class 1A, member 2
359250	0.0674486	carbonic anhydrase IV
345034	−1.0600859	small inducible cytokine subfamily B (Cys-X-Cys), member
		14 (BRAK)
2164744	−0.2307289	neural cell adhesion molecule 1
613056	−0.3957342	reticulocalbin 1, EF-hand calcium binding domain
1410444	−0.0368027	amphiregulin (schwannoma-derived growth factor)
593023	−0.7516846	dystrobrevin, beta
788511	0.1403148	ribosomal protein S6 kinase, 90 kD, polypeptide 1
455269	0.0223607
1650927	−0.1712163	hypothetical protein DKFZp547E052
782427	−0.2818886	inhibin, beta B (activin AB beta polypeptide)
71727	−0.2796517	T-cell acute lymphocytic leukemia 1
840942	−0.6383764	major histocompatibility complex, class II, DP beta 1
825470	0.5218731	topoisomerase (DNA) II alpha (170 kD)
595213	0.4824381	hypothetical protein
796694	0.6893307	baculoviral IAP repeat-containing 5 (survivin)
810711	0.9128832	stearoyl-CoA desaturase (delta-9-desaturase)
629944	0.5273447	myosin VB
66406	0.5966701	hypothetical protein DKFZp762E1312
785840	0.5401209	SEC24 (S. cerevisiae) related gene family, member D
210862	0.4683996	acyl-Coenzyme A oxidase 1, palmitoyl
84295	0.3989864	interleukin 1 receptor antagonist
429182	0.2952867	dolichyl-phosphate mannosyltransferase polypeptide 1,
		catalytic subunit
705064	0.4497555	transforming, acidic coiled-coil containing protein 3
782513	0.4759571	interferon, alpha-inducible protein (clone IFI-6-16)
839682	0.5208954	ubiquitin-conjugating enzyme E2N (homologous to yeast
		UBC13)
768377	0.3809674	activity-dependent neuroprotective protein
2309073	0.5226599	frizzled (Drosophila) homolog 5
789376	0.4339171	thioredoxin reductase 1
196992	−0.1015205	aldo-keto reductase family 1, member C1 (dihydrodiol
		dehydrogenase 1; 20-alpha (3-alpha)-hydroxysteroid
		dehydrogenase)
785707	0.4708376	protein regulator of cytokinesis 1
1505038	1.1904802	hypothetical protein FLJ20171
869375	0.4827093	isocitrate dehydrogenase 2 (NADP+), mitochondrial
109221	0.3048287	KIAA0286 protein
345787	0.4647372	highly expressed in cancer, rich in leucine heptad repeats
46248	0.640944	ADP-ribosyltransferase (NAD+; poly (ADP-ribose)
		polymerase)
79520	0.6769129	RAB2, member RAS oncogene family
469383	0.5558732	chromosome 8 open reading frame 1
509588	0.4157059	TATA box binding protein (TBP)-associated factor, RNA
		polymerase II, J, 20 kD
292936	0.4217115	hypothetical protein FLJ10468
686172	0.6724684	KIAA0008 gene product
788655	0.2976191	HTPAP protein
770992	0.3331315
1587847	0.1732392	minichromosome maintenance deficient (mis5, S. pombe) 6
79710	0.4579008	KIAA0174 gene product
2056566	0.2341905	integrin, alpha M (complement component receptor 3, alpha;
		also known as CD11b (p170), macrophage antigen alpha
		polypeptide)
454339	0.3738929	thiopurine S-methyltransferase
594226	0.403676	Homo sapiens cDNA FLJ14459 fis, clone HEMBB1002409
897813	0.4749348	polyadenylate binding protein-interacting protein 1
824694	0.0268936	protein tyrosine phosphatase type IVA, member 1
725454	0.6669973	CDC28 protein kinase 2
79254	0.0732432	MHC class I region ORF
1472719	0.2550065	SMT3 (suppressor of mif two 3, yeast) homolog 1
2054635	0.7914755	proteasome (prosome, macropain) subunit, alpha type, 7
289978	0.6308861	ubiquitin-like 4
155806	0.2747101	2′-5′-oligoadenylate synthetase 2 (69-71 kD)
147834	0.4412795	zinc finger protein 217
26171	0.3656147	KIAA0856 protein
2322367	0.5832711	reticulon 4
769921	0.6464245	ubiquitin carrier protein E2-C
73009	0.4822587	ESTs, Weakly similar to A43932 mucin 2 precursor, intestinal
		[H. sapiens]
2014034	0.6620303	methylene tetrahydrofolate dehydrogenase (NAD+
		dependent), methenyltetrahydrofolate cyclohydrolase
359887	0.8692353	translocase of inner mitochondrial membrane 17 (yeast)
		homolog A
488964	0.9569176	H2A histone family, member O
1476065	0.289904	stathmin 1/oncoprotein 18
1422338	0.5874097	ribonucleotide reductase M2 polypeptide
268946	0.5440003	WD40 protein Ciao1
686552	0.7231319	golgi phosphoprotein 1
149544	0.283642	neuroepithelial cell transforming gene 1
770675	0.454729	Homo sapiens cDNA: FLJ21323 fis, clone COL02374
346257	0.1515899	minichromosome maintenance deficient (S. cerevisiae) 4
429799	0.6915155	hypothetical protein FLJ21939 similar to 5-azacytidine
		induced gene 2
143997	0.1883447	proteasome (prosome, macropain) 26S subunit, non-
		ATPase, 10
122241	0.7394284	proteasome (prosome, macropain) subunit, beta type, 2
823598	0.9153521	proteasome (prosome, macropain) 26S subunit, non-
		ATPase, 12
814632	0.0960611	splicing factor, arginine/serine-rich (transformer 2 Drosophila
		homolog) 10
810316	0.3732635	very long-chain acyl-CoA synthetase; lipidosin
290841	0.8346933	H2B histone family, member A
347373	0.7563599	transcription elongation factor B (SIII), polypeptide 1 (15 kD,
		elongin C)
700792	0.4949149	cyclin-dependent kinase inhibitor 3 (CDK2-associated dual
		specificity phosphatase)
1554549	0.9764206	hydroxyacyl glutathione hydrolase
897770	0.4270685
504308	0.5564295	hypothetical protein FLJ10540
132828	0.2875519	Down syndrome critical region gene 1-like 2
292388	0.112577
1616253	0.567837	breast carcinoma amplified sequence 1
796469	1.0269115	HSPC150 protein similar to ubiquitin-conjugating enzyme
2139152	−0.4373776	Homo sapiens clone 24473 mRNA sequence
130276	0.2154295	Homo sapiens mRNA; cDNA DKFZp586H0324 (from clone
		DKFZp586H0324)
34149	0.309569	KIAA0227 protein
150003	0.8251408	hypothetical protein FLJ13187
287749	0.3173706	CDC7 (cell division cycle 7, S. cerevisiae, homolog)-like 1
25380	0.164077	ESTs, Moderately similar to JC5238 galactosylceramide-like
		protein, GCP [H. sapiens]
745083	0.4107735	ubiquitin specific protease 18
810899	0.240336	CD028 protein kinase 1
768059	0.3139886	hypothetical protein FLJ12619
815026	0.4472842	cleavage stimulation factor, 3′ pre-RNA, subunit 3, 77 kD
741474	0.7732047	glucose phosphate isomerase
788641	0.3638059	adaptor-related protein complex 1, sigma 2 subunit
2043167	0.7167431	BCL2-associated athanogene 3
1492780	0.6544659	Homo sapiens cDNA FLJ14459 fis, clone HEMBB1002409
2306987	0.4402912	secreted and transmembrane 1
754653	0.4405873	cadherin, EGF LAG seven-pass G-type receptor 3, flamingo
		(Drosophila) homolog
743810	0.3667087	hypothetical protein MGC2577
126858	0.2389814	sterol O-acyltransferase (acyl-Coenzyme A: cholesterol
		acyltransferase) 1
2017415	0.43546	centromere protein A (17 kD)
280507	0.2846518	hypoxanthine phosphoribosyltransferase 1 (Lesch-Nyhan
		syndrome)
67237	0.1406869	ESTs
43833	−0.1197546	diacylglycerol kinase, gamma (90 kD)
42076	0.3194462	TRK-fused gene
531319	0.1093932	serine/threonine kinase 12
784129	0.2902598	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase
		activation protein, gamma polypeptide
586895	0.2549108	small nuclear ribonucleoprotein polypeptide G

Example VIII

Genes for Discriminating Between DCIS Grade I and Grade III

As shown in Table 7 below, 350 genes were identified as being able to discriminate between grades of DCIS. The actual data corresponding to this table is shown in FIG. 4.

TABLE 7
CloneID	Weight	Description
2460159	4.6268975	tyrosine kinase, non-receptor, 1
358151	2.8783989	zinc finger protein 33a (KOX 31)
795382	2.772572	Rap1 guanine-nucleotide-exchange factor directly activated by
		cAMP
714472	2.6829714	KIAA0397 gene product
725649	2.6433625	nuclear factor of activated T-cells, cytoplasmic, calcineurin-
		dependent 4
51218	2.6200167	ESTs
504959	2.5777963	Homo sapiens mRNA; cDNA DKFZp586G0321 (from clone
		DKFZp586G0321)
647397	2.5320153	ESTs
814815	2.4198892	plakophilin 4
279720	2.4136316	ESTs, Moderately similar to A47582 B-cell growth factor
		precursor [H. sapiens]
298231	2.4096172	gamma-aminobutyric acid (GABA) B receptor, 1
172783	2.3339699	hypothetical protein FLJ10390
261609	2.311051	ESTs, Weakly similar to S65657 alpha-1C-adrenergic receptor
		splice form 2 [H. sapiens]
826668	2.2951137	KIAA0274 gene product
1493383	2.2616737	Homo sapiens mRNA; cDNA DKFZp434H2418 (from clone
		DKFZp434H2418)
2017756	2.2403622	homolog of yeast MOG1
1455566	2.1756946	adenosine A3 receptor
725321	2.1658095	estrogen receptor 1
180561	2.1393944	glutathione S-transferase M4
32050	2.1165022	Homo sapiens mRNA; cDNA DKFZp586P1124 (from clone
		DKFZp586P1124)
215000	2.1150123	vasoactive intestinal peptide receptor 1
2019750	2.0957741	SEC14 (S. cerevisiae)-like 2
283124	2.0921779	ESTs, Moderately similar to LONG-CHAIN FATTY ACID
		TRANSPORT PROTEIN [M. musculus]
490615	2.0635424	tubulin, gamma 2
666138	2.0625667	hypothetical protein DKFZp761J1523
418129	2.0541212	nuclear mitotic apparatus protein 1
1733262	2.052666	BLu protein
1588791	2.044069	O-6-methylguanine-DNA methyltransferase
461761	2.035953	angiogenin, ribonuclease, RNase A family, 5
1031592	1.9930012	kinesin protein 9 gene
126415	1.9781057	Homo sapiens mRNA; cDNA DKFZp566H0124 (from clone
		DKFZp566H0124)
28643	1.9733043	hypothetical protein DKFZp564D1378
470261	1.9160486
1630990	1.9155421	ribosomal protein L29
810981	1.9132205	hypothetical protein FLJ20699
767495	1.9052671	GLI-Kruppel family member GLI3 (Greig
		cephalopolysyndactyly syndrome)
767176	1.8996792	tumor necrosis factor (ligand) superfamily, member 13
1572196	1.8855996	secreted modular calcium-binding protein 2
1706635	1.8754346	bone gamma-carboxyglutamate (gla) protein (osteocalcin)
186301	1.8424458	Homo sapiens cDNA FLJ12924 fis, clone NT2RP2004709
726703	1.842399	Homo sapiens clone 23736 mRNA sequence
214205	1.8416657	Homo sapiens, clone MGC: 17687 IMAGE: 3865868, mRNA,
		complete cds
784178	1.822159	Homo sapiens mRNA; cDNA DKFZp586M0723 (from clone
		DKFZp586M0723)
346902	1.8196723	ESTs, Weakly similar to ALU2_HUMAN ALU SUBFAMILY SB
		SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
1367678	1.8184255	KIAA0356 gene product
190059	1.7988757	guanine nucleotide binding protein (G protein), gamma 7
1456937	1.7980645	oviductal glycoprotein 1, 120 kD (mucin 9, oviductin)
45578	1.7935215	mitogen-activated protein kinase kinase 6
248631	1.7701919	aminomethyltransferase (glycine cleavage system protein T)
1562231	1.7668811	SET binding protein 1
154466	1.7516237	STIP1 homology and U-Box containing protein 1
2524445	1.7392197	neuronal PAS domain protein 1
277266	1.7307752	Homo sapiens, clone IMAGE: 3625550, mRNA, partial cds
741891	1.7297992	RAB2, member RAS oncogene family-like
206217	1.7227658	nuclear receptor subfamily 1, group H, member 3
2028876	1.7128178	splicing factor, arginine/serine-rich 5
730036	1.70573	Mad4 homolog
1558233	1.7035129	ESTs
502518	1.7027287	laminin, beta 2 (laminin S)
356835	1.7014349	hypothetical protein MGC10500
744994	1.6938348	hypothetical protein FLJ12242
810358	1.6924263	acyl-Coenzyme A dehydrogenase, very long chain
813854	1.6914133	purine-rich element binding protein A
768043	1.6854123	ECSIT
264632	1.6591646	ESTs
505243	1.6581518	inositol 1,4,5-triphosphate receptor, type 2
344073	1.6571604	ESTs, Weakly similar to K1CI_HUMAN KERATIN, TYPE I
		CYTOSKELETAL 9 [H. sapiens]
343760	1.6435915	SH3 domain binding glutamic acid-rich protein like 2
1569418	1.6408767	Homo sapiens cDNA FLJ11385 fis, clone HEMBA1000520
202577	1.6393518	histamine N-methyltransferase
823634	1.6366047	ESTs
839796	1.630887	candidate tumor suppressor p33 ING1 homolog
183440	1.6297915	arylsulfatase A
344959	1.6268043	gene for serine/threonine protein kinase
1574252	1.6211224	DKFZP586D0623 protein
669359	1.6174855	Homo sapiens clone 24405 mRNA sequence
74070	1.6096611	endosulfine alpha
1660649	1.6051582	suppressor of white apricot homolog 2
796723	1.6041219	Homo sapiens clone CDABP0014 mRNA sequence
743146	1.597094	hypothetical protein FLJ23403
789147	1.5937127	enolase 2, (gamma, neuronal)
342181	1.5926355	B-cell CLL/lymphoma 2
33076	1.5824352	cholinephosphotransferase 1
782497	1.5804781	Homo sapiens, clone IMAGE: 3010666, mRNA, partial cds
470261	1.5751564	SMA5
809507	1.5723669	hypothetical protein FLJ20568
712460	1.5721924	natural killer-tumor recognition sequence
293569	1.5662317	chromosome 1 open reading frame 21
1518402	1.5627158	KIAA1361 protein
155072	1.5557559	ESTs
455269	1.5538593
262804	1.5532348	hypothetical protein MGC2941
1492238	1.5484044	HSPC003 protein
364865	1.5483958	hypothetical protein FLJ21062
2325804	1.5461823	95 kDa retinoblastoma protein binding protein
1635062	1.5449944	DKFZP586A011 protein
344168	1.5421405	polymerase (DNA directed), lambda
1517171	1.5381921	interleukin 2 receptor, alpha
769600	1.5335878	uracil-DNA glycosylase 2
325583	1.5245817	EST
814826	1.5223296	ESTs
1570502	1.5184543	Homo sapiens cDNA FLJ12936 fis, clone NT2RP2005018
511831	1.5183298	hypothetical protein MGC12936
124922	1.5052004	KRAB-zinc finger protein SZF1-1
2072768	1.4886791	nuclear receptor coactivator 3
2021882	1.4854251	sodium channel, nonvoltage-gated 1, delta
627248	1.4827018	SBBI31 protein
725503	1.476461	D-dopachrome tautomerase
285312	1.4699425
141731	1.469088
1456701	1.4668054	B-cell CLL/lymphoma 9
898222	1.4667947	Homo sapiens clone 24418 mRNA sequence
725284	1.4638006	phosphorylase kinase, gamma 2 (testis)
154999	1.4564204	hypothetical protein FLJ21007
1592530	1.4558873	mammalian inositol hexakisphosphate kinase 2
590310	1.4534138	Homo sapiens mRNA; cDNA DKFZp434E2321 (from clone
		DKFZp434E2321); partial cds
416042	1.446691	ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY J
		SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
2017144	1.4450059	CGI-41 protein
309449	1.4412699	ribosomal protein S4, Y-linked
450301	1.4403678	mutL (E. coli) homolog 3
1492468	1.4375076	DEME-6 protein
121454	1.4361788	arachidonate 12-lipoxygenase
743880	1.4294838	KIAA0263 gene product
1568967	1.4109448	ESTs
1568989	1.4094472	ESTs
25274	1.4078252	g20 protein
2413337	1.4058288	sortilin-related receptor, L(DLR class) A repeats-containing
197913	1.3994468	splicing factor proline/glutamine rich (polypyrimidine tract-
		binding protein-associated)
292770	1.3952057	Homo sapiens, clone IMAGE: 3627860, mRNA, partial cds
143332	1.3875805	neuropeptide Y receptor Y1
809779	1.3848708	KIAA0239 protein
138242	1.3820433	ESTs, Moderately similar to MAS2_HUMAN MANNAN-
		BINDING LECTIN SERINE PROTEASE 2 PRECURSOR
		[H. sapiens]
270127	1.3786197
49240	1.3772023	KIAA0460 protein
826622	1.3734143	KIAA0430 gene product
1858837	1.3719341	ESTs
1583198	1.3712112	ESTs, Weakly similar to S65824 reverse transcriptase
		homolog [H. sapiens]
345858	1.3629187	cisplatin resistance associated
208387	1.3597205	KIAA1407 protein
502782	1.3589088	RAN binding protein 3
26294	1.3578289	RNB6
669379	1.3559931	Homo sapiens BAC clone RP11-505D17 from 7p22-p21
810728	1.355262	hypothetical gene ZD52F10
1601845	1.3533864	Ca2+-promoted Ras inactivator
840882	1.350538	nucleotide binding protein
82173	1.3485351	MYLE protein
490965	1.3476943	ESTs
811162	1.3450626	fibromodulin
61061	1.3437368	hypothetical protein FLJ20585
49630	1.3412751	calcium channel, voltage-dependent, L type, alpha 1D subunit
825659	−2.8345933	N-myc downstream regulated
769921	−2.712812	ubiquitin carrier protein E2-C
788232	−2.6550962	sestrin 2
1476053	−2.529039	RAD51 (S. cerevisiae) homolog (E coli RecA homolog)
809557	−2.4910488	minichromosome maintenance deficient (S. cerevisiae) 3
150897	−2.4302462	UDP-GlcNAc:betaGal beta-1,3-N-
		acetylglucosaminyltransferase 3
814526	−2.37273	seb4D
796694	−2.3104815	baculoviral IAP repeat-containing 5 (survivin)
814792	−2.3001334	ubiquitin specific protease 10
1536236	−2.2971152	hypothetical protein FLJ13154
2017415	−2.2748559	centromere protein A (17 kD)
210862	−2.2408114	acyl-Coenzyme A oxidase 1, palmitoyl
795543	−2.2403389	thioredoxin peroxidase (antioxidant enzyme)
773301	−2.2239527	cadherin 3, type 1, P-cadherin (placental)
700792	−2.2203557	cyclin-dependent kinase inhibitor 3 (CDK2-associated dual
		specificity phosphatase)
1883327	−2.2093248	ESTs
1523225	−2.1936598	oncostatin M receptor
208718	−2.1882654	annexin A1
1702742	−2.1567809	solute carrier family 7 (cationic amino acid transporter, y+
		system), member 5
753378	−2.151145	hypothetical protein FLJ22649 similar to signal peptidase
		SPC22/23
429222	−2.1351022	CGI-107 protein
292388	−2.1343367
781047	−2.1262682	budding uninhibited by benzimidazoles 1 (yeast homolog)
450854	−2.0819596	craniofacial development protein 1
823598	−2.0693353	proteasome (prosome, macropain) 26S subunit, non-ATPase,
		12
1422338	−2.0689327	ribonucleotide reductase M2 polypeptide
705064	−2.0601901	transforming, acidic coiled-coil containing protein 3
770675	−2.0272207	Homo sapiens cDNA: FLJ21323 fis, clone COL02374
345787	−1.9992897	highly expressed in cancer, rich in leucine heptad repeats
471196	−1.9985751	integral membrane protein 3
753215	−1.9954476	guanine nucleotide binding protein (G protein), alpha inhibiting
		activity polypeptide 1
869375	−1.9803724	isocitrate dehydrogenase 2 (NADP+), mitochondrial
842818	−1.9796507	lysyl-tRNA synthetase
229579	−1.9782493	Golgi apparatus protein 1
1916461	−1.9736332	hypothetical protein
129294	−1.9730334	ESTs
789376	−1.9719575	thioredoxin reductase 1
1897302	−1.9681938	serine/threonine kinase 17b (apoptosis-inducing)
951117	−1.9577807	eukaryotic translation elongation factor 1 gamma
1642496	−1.9484342	hypothetical protein MGC11266
591465	−1.9277062	Homo sapiens, clone MGC: 2908 IMAGE: 3029644, mRNA,
		complete cds
149355	−1.8999907	translocating chain-associating membrane protein
259950	−1.8958779	hypothetical protein FLJ14991
897770	−1.8887034
878798	−1.8774101	beta-2-microglobulin
746229	−1.873434	mitogen-activated protein kinase kinase kinase kinase 4
624867	−1.8594915	hypothetical protein FLJ20186
504308	−1.8590049	hypothetical protein FLJ10540
727251	−1.8553757	CD9 antigen (p24)
897774	−1.8532125	adenine phosphoribosyltransferase
1901310	−1.8434048	KIAA1209 protein
292936	−1.838542	hypothetical protein FLJ10468
1518591	−1.8382765
321354	−1.8123042	mitochondrial ribosomal protein L15
1903066	−1.8071117	keratin, hair, basic, 1
235180	−1.8004039	ESTs, Moderately similar to ALU1_HUMAN ALU SUBFAMILY
		J SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
740604	−1.7995578	interferon stimulated gene (20 kD)
233464	−1.7978669	epithelial V-like antigen 1
951241	−1.7961406	clone HQ0310 PRO0310p1
1587847	−1.7886092	minichromosome maintenance deficient (mis5, S. pombe) 6
624390	−1.7800152	DC13 protein
128711	−1.7791673	anillin (Drosophila Scraps homolog), actin binding protein
308633	−1.7667341	hypothetical protein FLJ10339
884425	−1.761486	chaperonin containing TCP1, subunit 5 (epsilon)
745394	−1.7583344	Homo sapiens cDNA: FLJ23249 fis, clone COL04196
852829	−1.7579704	karyopherin alpha 3 (importin alpha 4)
122241	−1.7490794	proteasome (prosome, macropain) subunit, beta type, 2
307255	−1.7294781	basement membrane-induced gene
32493	−1.7273675	integrin, alpha 6
454896	−1.7216328	DnaJ (Hsp40) homolog, subfamily A, member 2
1876217	−1.7186822	DnaJ (Hsp40) homolog, subfamily A, member 2
815556	−1.7161709	hypothetical protein FLJ10430
589869	−1.7120206	transcriptional co-activator with PDZ-binding motif (TAZ)
2012523	−1.7104314	fatty acid binding protein 5 (psoriasis-associated)
1946448	−1.7092537	caveolin 2
841370	−1.7047297	glutamic-oxaloacetic transaminase 2, mitochondrial (aspartate
		aminotransferase 2)
1600239	−1.6989076	HSPC037 protein
462926	−1.6981004	NIMA (never in mitosis gene a)-related kinase 2
144880	−1.6980733	hypothetical protein from EUROIMAGE 1759349
744047	−1.6910803	polo (Drosophila)-like kinase
624627	−1.6888444	ribonucleotide reductase M2 polypeptide
788566	−1.6752673	Purkinje cell protein 4
858293	−1.6732706	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase
		activation protein, theta polypeptide
470148	−1.659943	ESTs
66902	−1.6546363	ESTs
77533	−1.6505418	inositol polyphosphate-5-phosphatase, 40 kD
825282	−1.6417354	DKFZP586L0724 protein
785840	−1.6406565	SEC24 (S. cerevisiae) related gene family, member D
824962	−1.6399941	karyopherin alpha 2 (RAG cohort 1, importin alpha 1)
741139	−1.6396499	eyes absent (Drosophila) homolog 2
809530	−1.6264151	minichromosome maintenance deficient (S. cerevisiae) 2
		(mitotin)
2054635	−1.6254343	proteasome (prosome, macropain) subunit, alpha type, 7
813533	−1.6215197	syndecan binding protein (syntenin)
267816	−1.6173276	KIAA0551 protein
306318	−1.6083862	origin recognition complex, subunit 6 (yeast homolog)-like
796469	−1.6065509	HSPC150 protein similar to ubiquitin-conjugating enzyme
813256	−1.6027042	ATP-binding cassette, sub-family B (MDR/TAP), member 1
843121	−1.60128	chloride intracellular channel 1
713685	−1.6006729	protease, serine, 2 (trypsin 2)
811590	−1.6001102	hypothetical protein FLJ11100
823756	−1.5995448	mitogen inducible 2
549073	−1.597146	capping protein (actin filament) muscle Z-line, alpha 2
743810	−1.5960999	hypothetical protein MGC2577
377368	−1.5955102	cell death regulator aven
1506046	−1.5918448	hypothetical protein FLJ10815
814270	−1.5890389	polymyositis/scleroderma autoantigen 1 (75 kD)
1604703	−1.5853167	major histocompatibility complex, class I, F
234736	−1.5765159	GATA-binding protein 6
429182	−1.5699689	dolichyl-phosphate mannosyltransferase polypeptide 1,
		catalytic subunit
826355	−1.5677013	vesicle-associated membrane protein 5 (myobrevin)
34149	−1.5659923	KIAA0227 protein
746190	−1.5635857	hypothetical protein DKFZp761B1514
131091	−1.558448	Not56 (D. melanogaster)-like protein
665384	−1.5550415	KIAA1609 protein
625683	−1.5501423	neighbor of COX4
1582738	−1.544427	uncharacterized bone marrow protein BM040
949988	−1.5437326	Homo sapiens mRNA; cDNA DKFZp586E1124 (from clone
		DKFZp586E1124); complete cds
133213	−1.5433392	fucosyltransferase 4 (alpha (1,3) fucosyltransferase, myeloid-
		specific)
1660666	−1.5423907	carbonic anhydrase VB, mitochondrial
713158	−1.5372729	ESTs
1614140	−1.5341302	Ris
201890	−1.5333626	baculoviral IAP repeat-containing 3
38925	−1.5304604	ESTs, Moderately similar to A47582 B-cell growth factor
		precursor [H. sapiens]
511850	−1.5294752	proteasome (prosome, macropain) 26S subunit, ATPase, 1
489489	−1.5169076	lamin B receptor
825470	−1.5154306	topoisomerase (DNA) II alpha (170 kD)
42831	−1.5136459	N-terminal kinase-like
809784	−1.5066053	kallikrein 6 (neurosin, zyme)
730410	−1.506168	lymphocyte-specific protein tyrosine kinase
810983	−1.5060386	DKFZP434H132 protein
731223	−1.5058799	proteasome (prosome, macropain) subunit, beta type, 2
259017	−1.5053827	ESTs
340745	−1.5041978	ESTs
746163	−1.5000358	ESTs, Weakly similar to ALU1_HUMAN ALU SUBFAMILY J
		SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
1466621	−1.4998321	ATPase, Ca++ transporting, type 2C, member 1
809588	−1.49754	gamma-glutamyl hydrolase (conjugase,
		folylpolygammaglutamyl hydrolase)
813707	−1.4946872	regulator of G-protein signalling 16
188335	−1.4895328	egf-like module containing, mucin-like, hormone receptor-like
		sequence 2
1493160	−1.4851884	small inducible cytokine subfamily B (Cys-X-Cys), member 10
531886	−1.4842053	Homo sapiens clone FLB3344 PRO0845 mRNA, complete cds
753428	−1.4835152	Homo sapiens, clone IMAGE: 3542597, mRNA, partial cds
897731	−1.4833877	latrophilin
376551	−1.4811859	ETAA16 protein
256907	−1.4755682	glutathione S-transferase A3
712139	−1.4735772	ADP-ribosylation factor-like 7
785368	−1.4680554	PDZ-binding kinase; T-cell originated protein kinase
825606	−1.4667088	kinesin-like 1
531319	−1.4659871	serine/threonine kinase 12
66406	−1.4641179	hypothetical protein DKFZp762E1312
470124	−1.4635711	RAD1 (S. pombe) homolog

Example IX

Genes for Discriminating Between IDC Grade I and Grade III

As shown in Table 8 below, 300 genes were identified as being able to discriminate between two grades of IDC.

TABLE 8
CloneID	Weight	Description
1706635	3.279305	bone gamma-carboxyglutamate (gla) protein (osteocalcin)
666138	3.1366533	hypothetical protein DKFZp761J1523
795382	3.0005724	Rap1 guanine-nucleotide-exchange factor directly activated by
		cAMP
364865	2.8512705	hypothetical protein FLJ21062
1500542	2.8021264	regulator of G-protein signalling 11
270127	2.7455118
588262	2.7127609	Homo sapiens, Similar to RIKEN cDNA 2600001A11 gene,
		clone MGC: 9907 IMAGE: 3870073, mRNA, complete cds
277266	2.5004627	Homo sapiens, clone IMAGE: 3625550, mRNA, partial cds
2090129	2.4882736	chromobox homolog 2 (Drosophila Pc class)
325583	2.4558352	EST
358151	2.4309122	zinc finger protein 33a (KOX 31)
786675	2.3877233	epididymis-specific, whey-acidic protein type, four-disulfide
		core; putative ovarian carcinoma marker
854763	2.378956	Homo sapiens cDNA FLJ11341 fis, clone PLACE1010786
1592976	2.3417116	microphthalmia-associated transcription factor
1562231	2.286418	SET binding protein 1
767176	2.2472282	tumor necrosis factor (ligand) superfamily, member 13
784178	2.2026739	Homo sapiens mRNA; cDNA DKFZp586M0723 (from clone
		DKFZp586M0723)
811162	2.1926501	fibromodulin
502518	2.1886432	laminin, beta 2 (laminin S)
754429	2.1363368	ESTs, Weakly similar to T00084 hypothetical protein
		KIAA0512 [H. sapiens]
214205	2.1127961	Homo sapiens, clone MGC: 17687 IMAGE: 3865868, mRNA,
		complete cds
61061	2.1046094	hypothetical protein FLJ20585
344959	2.0756965	gene for serine/threonine protein kinase
814815	2.0694714	plakophilin 4
262804	2.0673444	hypothetical protein MGC2941
1455566	2.0489061	adenosine A3 receptor
1469149	1.9778151	Homo sapiens clone 24606 mRNA sequence
358217	1.9703763	glypican 4
206217	1.9595484	nuclear receptor subfamily 1, group H, member 3
261609	1.958083	ESTs, Weakly similar to S65657 alpha-1C-adrenergic receptor
		splice form 2 [H. sapiens]
197525	1.9550731	flavin containing monooxygenase 5
857640	1.9532398	collagen, type VI, alpha 2
812143	1.9469226	fibronectin leucine rich transmembrane protein 3
898222	1.9409805	Homo sapiens clone 24418 mRNA sequence
418129	1.9385868	nuclear mitotic apparatus protein 1
2021882	1.9213983	sodium channel, nonvoltage-gated 1, delta
293819	1.919948	oxidoreductase UCPA
203003	1.8989675	non-metastatic cells 4, protein expressed in
705274	1.8986548	diacylglycerol kinase, delta (130 kD)
124922	1.8975916	KRAB-zinc finger protein SZF1-1
2505310	1.8859615	calcium/calmodulin-dependent protein kinase I
1492238	1.8795818	HSPC003 protein
810358	1.8732889	acyl-Coenzyme A dehydrogenase, very long chain
2391494	1.8698169	ephrin-A4
1592530	1.8669954	mammalian inositol hexakisphosphate kinase 2
810671	1.8659671	hypothetical protein FLJ22269
2108048	1.8648249	DNB5
730036	1.8564918	Mad4 homolog
810741	1.831265	GABA(A) receptor-associated protein
45578	1.8274273	mitogen-activated protein kinase kinase 6
647397	1.8263711	ESTs
767495	1.8149096	GLI-Kruppel family member GLI3 (Greig
		cephalopolysyndactyly syndrome)
32050	1.8117146	Homo sapiens mRNA; cDNA DKFZp586P1124 (from clone
		DKFZp586P1124)
811848	1.8106436	hypothetical protein
186301	1.8021505	Homo sapiens cDNA FLJ12924 fis, clone NT2RP2004709
366526	1.7836259	ESTs, Weakly similar to ALU5_HUMAN ALU SUBFAMILY SC
		SEQUENCE CONTAMINATION WARNING ENTRY
		[H. sapiens]
813154	1.7815662	nuclear factor I/A
85195	1.778695	growth arrest and DNA-damage-inducible, gamma
2460159	1.7730834	tyrosine kinase, non-receptor, 1
504959	1.7723846	Homo sapiens mRNA; cDNA DKFZp586G0321 (from clone
		DKFZp586G0321)
742094	1.7684813	hypothetical protein FLJ20950
256619	1.7658619	hydroxysteroid (17-beta) dehydrogenase 7
726699	1.7594888	ESTs, Weakly similar to AAB47496 NG5 [H. sapiens]
2017144	1.7514699	CGI-41 protein
74070	1.7336683	endosulfine alpha
1762111	1.7236006	natriuretic peptide receptor C/guanylate cyclase C
		(atrionatriuretic peptide receptor C)
795750	1.7116475	Homo sapiens clone 25056 mRNA sequence
2019750	1.7095011	SEC14 (S. cerevisiae)-like 2
2325804	1.7039903	95 kDa retinoblastoma protein binding protein
279720	1.693594	ESTs, Moderately similar to A47582 B-cell growth factor
		precursor [H. sapiens]
132857	1.6875688	Homo sapiens mRNA; cDNA DKFZp586N1323 (from clone
		DKFZp586N1323)
1898619	1.684954	hypothetical protein MGC15737
681992	1.6802347	Homo sapiens cDNA FLJ13384 fis, clone PLACE1001062,
		highly similar to Homo sapiens mRNA for lysine-ketoglutarate
		reductase/saccharopine dehydrogenase
85450	1.6753438	acyl-Coenzyme A oxidase 2, branched chain
51218	1.6748931	ESTs
1925280	1.6563658	homologous to yeast nitrogen permease (candidate tumor
		suppressor)
250883	1.6504115	ubiquitin-activating enzyme E1-like
172783	1.6502064	hypothetical protein FLJ10390
208387	1.6498608	KIAA1407 protein
703964	1.6452497	inositol polyphosphate phosphatase-like 1
298231	1.6428171	gamma-aminobutyric acid (GABA) B receptor, 1
277848	1.6407233	ADP-ribosylation factor 6
669359	1.6386236	Homo sapiens clone 24405 mRNA sequence
321455	1.6327309	Homo sapiens, Similar to RIKEN cDNA 1110002C08 gene,
		clone MGC: 9564 IMAGE: 3872267, mRNA, complete cds
796152	1.6295159	Homo sapiens cDNA FLJ11685 fis, clone HEMBA1004934
502782	1.614818	RAN binding protein 3
360778	1.6091782
950574	1.606032	H3 histone, family 3B (H3.3B)
788334	1.5816572	mitochondrial ribosomal protein L23
782497	1.5767626	Homo sapiens, clone IMAGE: 3010666, mRNA, partial cds
1733262	1.5656438	BLu protein
342181	1.5642436	B-cell CLL/lymphoma 2
1632248	1.5590794	Homo sapiens cDNA FLJ14181 fis, clone NT2RP2004300
1526826	1.5576997	homeo box B2
145132	1.5520317	mannose-P-dolichol utilization defect 1
183062	1.5400324	ubiquitin specific protease 21
823663	1.5337257	fragile X mental retardation, autosomal homolog 2
190059	1.5258594	guanine nucleotide binding protein (G protein), gamma 7
111721	1.5045285	insulin induced protein 2
840882	1.5039692	nucleotide binding protein
1902764	1.5037016	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3
414999	1.5021506	ets variant gene 4 (E1A enhancer-binding protein, E1AF)
1636523	1.4948923	glutathione S-transferase subunit 13 homolog
594683	1.4862053	ESTs
1916575	1.4825298	BCL2-interacting killer (apoptosis-inducing)
1456937	1.4730662	oviductal glycoprotein 1, 120 kD (mucin 9, oviductin)
25274	1.464238	g20 protein
795288	1.4625618	ubiquitin specific protease 4 (proto-oncogene)
1569418	1.4599089	Homo sapiens cDNA FLJ11385 fis, clone HEMBA1000520
753700	1.4522717	Ras-related GTP-binding protein
1691237	1.4516493	ESTs
741891	1.450795	RAB2, member RAS oncogene family-like
1493383	1.4468163	Homo sapiens mRNA; cDNA DKFZp434H2418 (from clone
		DKFZp434H2418)
1675273	1.445145	RAR-related orphan receptor C
293916	1.4265341	FKBP-associated protein
39600	1.4224626	adenylate kinase 5
1573087	1.4200341	KIAA0592 protein
839796	1.4114662	candidate tumor suppressor p33 ING1 homolog
296123	1.4057088	Homo sapiens PRO1851 mRNA, complete cds
727263	1.4046408	heterogeneous nuclear ribonucleoprotein U (scaffold
		attachment factor A)
265045	1.4041143	Homo sapiens mRNA; cDNA DKFZp586B0918 (from clone
		DKFZp586B0918)
869450	1.4034983	ribosomal protein L11
714472	1.4006155	KIAA0397 gene product
825296	1.3963737	low density lipoprotein receptor defect C complementing
753301	1.3962897	carcinoembryonic antigen-related cell adhesion molecule 1
		(biliary glycoprotein)
700527	1.394937	glutaredoxin (thioltransferase)
811565	1.3909974	KIAA1694 protein
1630990	1.3843882	ribosomal protein L29
70749	1.3810753	Homo sapiens cDNA: FLJ21874 fis, clone HEP02488
814826	1.3785178	ESTs
175103	1.376581	cadherin, EGF LAG seven-pass G-type receptor 2, flamingo
		(Drosophila) homolog
215000	1.3677098	vasoactive intestinal peptide receptor 1
810331	1.3656069	quiescin Q6
1681421	1.3645145	EGF-like-domain, multiple 3
502198	1.3619124	protein phosphatase 1, regulatory (inhibitor) subunit 5
825365	1.361275	hypothetical protein FLJ21919
1557047	1.3582677	thrombospondin 3
2067500	1.3579293	Z-band alternatively spliced PDZ-motif
490615	1.3566637	tubulin, gamma 2
743880	1.3528093	KIAA0263 gene product
812099	1.3444147	RNA binding motif protein 5
868652	1.3432331	complement component 4B
120138	1.3384804	J domain containing protein 1
156363	1.3358314	hypothetical protein FLJ12934
813584	1.3327194	p53 regulated PA26 nuclear protein
726703	1.3247883	Homo sapiens clone 23736 mRNA sequence
809507	1.3225829	hypothetical protein FLJ20568
2018423	1.3212314	death-associated protein kinase 2
292806	1.3201283	chromosome segregation 1 (yeast homolog)-like
741977	1.3200635	B-factor, properdin
610326	−4.5776738
322494	−3.6341126	core-binding factor, beta subunit
824962	−3.6328144	karyopherin alpha 2 (RAG cohort 1, importin alpha 1)
825659	−3.6247426	N-myc downstream regulated
796694	−3.5038212	baculoviral IAP repeat-containing 5 (survivin)
149355	−3.4959791	translocating chain-associating membrane protein
814270	−3.3246381	polymyositis/scleroderma autoantigen 1 (75 kD)
884425	−3.3113482	chaperonin containing TCP1, subunit 5 (epsilon)
1874367	−3.2390912	small inducible cytokine subfamily A (Cys—Cys), member 20
742707	−3.2093502	ESTs, Weakly similar to MUC2_HUMAN MUCIN 2
		PRECURSOR [H. sapiens]
321354	−3.1386611	mitochondrial ribosomal protein L15
280375	−3.110486	PRO2000 protein
2018154	−3.0906181	electron-transfer-flavoprotein, beta polypeptide
814792	−3.0561472	ubiquitin specific protease 10
826070	−3.0517117	KIAA0948 protein
624867	−2.9688171	hypothetical protein FLJ20186
202035	−2.9361687	uncharacterized hypothalamus protein HT010
1476053	−2.9129535	RAD51 (S. cerevisiae) homolog (E coli RecA homolog)
194318	−2.8913426	hypothetical protein MGC5585
769921	−2.8415969	ubiquitin carrier protein E2-C
1732922	−2.8216808	Homo sapiens mRNA; cDNA DKFZp762H106 (from clone
		DKFZp762H106)
1536236	−2.7995652	hypothetical protein FLJ13154
200402	−2.7793137	hypothetical protein dJ616B8.3
815556	−2.7693	hypothetical protein FLJ10430
1055607	−2.7538365	SUMO-1 activating enzyme subunit 1
1466621	−2.7448687	ATPase, Ca++ transporting, type 2C, member 1
770675	−2.6929924	Homo sapiens cDNA: FLJ21323 fis, clone COL02374
79520	−2.6909833	RAB2, member RAS oncogene family
950355	−2.6845343	ESTs, Weakly similar to S13495 pregnancy zone protein
		[H. sapiens]
79710	−2.6813265	KIAA0174 gene product
2011138	−2.6569485	KIAA1036 protein
898333	−2.6509707	ESTs
878846	−2.6361347	brain protein I3
842818	−2.63282	lysyl-tRNA synthetase
1553065	−2.627227	hypothetical protein FLJ14993
136722	−2.6269431	ATPase, Na+/K+ transporting, beta 3 polypeptide
308633	−2.6261051	hypothetical protein FLJ10339
854581	−2.6159344	transcription factor 4
951241	−2.5987959	clone HQ0310 PRO0310p1
292936	−2.5940369	hypothetical protein FLJ10468
781047	−2.569753	budding uninhibited by benzimidazoles 1 (yeast homolog)
823907	−2.5587562	hypothetical protein FLJ10511
377368	−2.5495557	cell death regulator aven
292388	−2.5448438
122241	−2.539248	proteasome (prosome, macropain) subunit, beta type, 2
731223	−2.5364769	proteasome (prosome, macropain) subunit, beta type, 2
1660666	−2.534682	carbonic anhydrase VB, mitochondrial
825470	−2.530053	topoisomerase (DNA) II alpha (170 kD)
1472719	−2.526978	SMT3 (suppressor of mif two 3, yeast) homolog 1
869375	−2.5249164	isocitrate dehydrogenase 2 (NADP+), mitochondrial
302292	−2.5097213	exostoses (multiple) 2
1175007	−2.4998247	tumor necrosis factor receptor superfamily, member 10d,
		decoy with truncated death domain
1422338	−2.488461	ribonucleotide reductase M2 polypeptide
2014034	−2.4843808	methylene tetrahydrofolate dehydrogenase (NAD+
		dependent), methenyltetrahydrofolate cyclohydrolase
50884	−2.4377483	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2
1474424	−2.4345879	Homo sapiens cDNA FLJ12758 fis, clone NT2RP2001328
753285	−2.4324065	glycogenin
700792	−2.4311609	cyclin-dependent kinase inhibitor 3 (CDK2-associated dual
		specificity phosphatase)
259950	−2.4310983	hypothetical protein FLJ14991
610326	−2.4214624
284004	−2.4185183	ESTs
756595	−2.3963227	S100 calcium-binding protein A10 (annexin II ligand, calpactin
		I, light polypeptide (p11))
128711	−2.3891503	anillin (Drosophila Scraps homolog), actin binding protein
1582738	−2.3882015	uncharacterized bone marrow protein BM040
1915867	−2.3829702	Homo sapiens cDNA: FLJ21086 fis, clone CAS03272
754582	−2.3765311	ecotropic viral integration site 2A
462961	−2.3685047	dihydrofolate reductase
705064	−2.3682586	transforming, acidic coiled-coil containing protein 3
1553696	−2.3605995	vanin 1
129294	−2.3507956	ESTs
809588	−2.3342142	gamma-glutamyl hydrolase (conjugase,
		folylpolygammaglutamyl hydrolase)
1909526	−2.333814	ESTs, Weakly similar to 2004399A chromosomal protein
		[H. sapiens]
815771	−2.3166739	chromosome 7 open reading frame 2
703707	−2.2865473	aspartate beta-hydroxylase
2017415	−2.2832169	centromere protein A (17 kD)
1650942	−2.2797717	Human proteinase activated receptor-2 mRNA, 3′UTR
645079	−2.2761946	3′(2′), 5′-bisphosphate nucleotidase 1
133213	−2.2753496	fucosyltransferase 4 (alpha (1,3) fucosyltransferase, myeloid-
		specific)
788566	−2.2752004	Purkinje cell protein 4
2009574	−2.2646007	T brachyury (mouse) homolog
1897302	−2.2563379	serine/threonine kinase 17b (apoptosis-inducing)
78869	−2.2539078	cell membrane glycoprotein, 110000M(r) (surface antigen)
590759	−2.2513499	sterol-C4-methyl oxidase-like
785368	−2.2489394	PDZ-binding kinase; T-cell originated protein kinase
1714689	−2.2489064	ESTs
795197	−2.2481741	ubiquitin-conjugating enzyme E2E 2 (homologous to yeast
		UBC4/5)
781472	−2.2390098	Tax1 (human T-cell leukemia virus type I) binding protein 1
1469966	−2.2375228	delta (Drosophila)-like 3
1587847	−2.2354975	minichromosome maintenance deficient (mis5, S. pombe) 6
209066	−2.2325695
1035796	−2.2308926	ESTs
233464	−2.2280935	epithelial V-like antigen 1
753320	−2.2104141	hypothetical protein FLJ20533
486626	−2.2095389	ESTs
1505038	−2.2060272	hypothetical protein FLJ20171
503851	−2.1992378	nuclear receptor co-repressor/HDAC3 complex subunit
503671	−2.1939286	Homo sapiens cDNA FLJ14368 fis, clone HEMBA1001122
610326	−2.1885269
712139	−2.1839319	ADP-ribosylation factor-like 7
471196	−2.1797647	integral membrane protein 3
753215	−2.1781545	guanine nucleotide binding protein (G protein), alpha inhibiting
		activity polypeptide 1
183556	−2.1734918	gap junction protein, alpha 4, 37 kD (connexin 37)
809557	−2.1667294	minichromosome maintenance deficient (S. cerevisiae) 3
610326	−2.1633594	hypothetical protein MGC12992
1600239	−2.1602202	HSPC037 protein
1049291	−2.1593791	olfactory receptor, family 7, subfamily E, member 47
		pseudogene
839682	−2.1475459	ubiquitin-conjugating enzyme E2N (homologous to yeast
		UBC13)
950897	−2.1419057	Homo sapiens mRNA; cDNA DKFZp586G1922 (from clone
		DKFZp586G1922)
712577	−2.1411578	holocytochrome c synthase (cytochrome c heme-lyase)
824524	−2.1400285	UDP-galactose transporter related
241348	−2.1301572	prenylcysteine lyase
823930	−2.1259223	actin related protein 2/3 complex, subunit 1A (41 kD)
150314	−2.1206632	lysophospholipase I
795498	−2.1190094	putative transmembrane protein
82710	−2.1184513	glutathione S-transferase A2
1869201	−2.1135906	hypothetical protein MGC2745
1694526	−2.1126121	hypothetical protein FLJ11029
823598	−2.1072985	proteasome (prosome, macropain) 26S subunit, non-ATPase,
		12
214162	−2.1065234	metallothionein 1H
811590	−2.1050783	hypothetical protein FLJ11100
796904	−2.1050163	pleiomorphic adenoma gene-like 1
1517595	−2.0965219	KIAA0175 gene product
282428	−2.0954489	ESTs, Weakly similar to A46010 X-linked retinopathy protein
		[H. sapiens]
1883219	−2.0949091	ESTs
746229	−2.0906355	mitogen-activated protein kinase kinase kinase kinase 4
610326	−2.0896786	hypothetical protein MGC12992
1632225	−2.0828168	ESTs
743810	−2.0796998	hypothetical protein MGC2577
1416055	−2.0725881	extra spindle poles, S. cerevisiae, homolog of
1626297	−2.0656173	hypothetical protein FLJ20509
852829	−2.0608067	karyopherin alpha 3 (importin alpha 4)
840511	−2.0554449	vimentin
278504	−2.0519206	neurochondrin
1534700	−2.0506628	KIAA0830 protein
812276	−2.0458249	synuclein, alpha (non A4 component of amyloid precursor)
306841	−2.0449642	T cell receptor beta locus
3172883	−2.0437672	ESTs, Weakly similar to 1709359A dopamine D4 receptor
		[H. sapiens]
624627	−2.0409259	ribonucleotide reductase M2 polypeptide
486179	−2.0380168	Homo sapiens cDNA FLJ10205 fis, clone HEMBA1004954
376316	−2.0218598	wee1+ (S. pombe) homolog
37671	−2.0190035	hypothetical protein FLJ21610
629944	−2.0166696	myosin VB
713158	−2.0133834	ESTs
504308	−2.0067977	hypothetical protein FLJ10540
1605426	−1.9957389	hypothetical protein FLJ13352
810711	−1.9920785	stearoyl-CoA desaturase (delta-9-desaturase)
263790	−1.9904129	isocitrate dehydrogenase 3 (NAD+) alpha
549349	−1.9893582	hypothetical protein PRO1068
109221	−1.9879196	KIAA0286 protein
51773	−1.9875155	hypothetical protein MGC3077

Example X

Crossvalidation

The following table shows the results of crossvalidation analysis (as described in Example I above) of various pair-wise comparisons. The two members of the pairwise comparison are indicated as “Class 1” and “Class 2” with the number of samples analyzed indicated under “N”. The number of genes used to predict is indicated, along with the accuracy (in percent) for each combination. “FP” and “FN” refer to “false positive” and “false negative”, respectively, as incorrectly identified for each of the two classes.

			Class	Class
Class 1	Class 2		1	2
Name	N	Name	N	Genes	Accuracy	FP	FN	FP	FN
Normal	28	Abnormal	57	850	99	0	1	1	0
Normal	28	ADH	7	600	100	0	0	0	0
Normal	28	DCIS	28	1300	100	0	0	0	0
ADH	7	DCIS	28	350	97	0	1	1	0
ADH	7	DCIS	28	10	97	0	1	1	0
N +	36	DCIS + IDC	49	400	98	1	1	1	1
ADH
DCIS-I	7	DCIS-III	9	300	100	0	0	0	0
IDC-I	4	IDC-III	8	300	100	0	0	0	0

REFERENCES

• DeRisi, J., et al., Use of a cDNA microarray to analyse gene expression patterns in human cancer, Nature Genetics, (1996) 14:457-460.
• Hedenfalk, I., et al., Gene-Expression Profiles In Heredity Breast Cancer, The New England Journal of Medicine, (Feb. 22, 2001) 344:8:539-548.
• Golub, T. R., et al., Molecular Classification of Cancer: Class Discovery and Class Prediction by Gene Expression Monitoring, Science, (Oct. 15, 1999) 286:531-537.
• Perou, Charles M., et al., Molecular portraits of human breast tumours, Nature, (Aug. 17, 2000) 406:747-752.
• Garber, Mitchell E., et al., Diversity of gene expression in adenocarcinoma of the lung, Proc. Natl. Acad. Sci. USA, (Nov. 20, 2001) 98:24:13784-13789.
• Perou, Charles M., et al., Distinctive gene expression patterns in human mammary epithelial cells and breast cancers, Proc. Natl. Acad. Sci. USA, (August 1999) 96:9212-9217.
• Sgrio, Dennis C., et al., In Vivo Gene Expression Profile Analysis of Human Breast Cancer Progression, Cancer Research, (Nov. 15, 1999) 59:5656-5661.
• Sorlie, Therese, et al., Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications, Proc. Natl. Acad. Sci., (Sep. 11, 2001) 98:19:10869-10874.
• Alizadeh, Ash A., et al., Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling, Nature, (Feb. 3, 2000) 403:503-511.
• Bittner, M., et al., Molecular classification of cutaneous malignant melanoma by gene expression profiling, Nature (Aug. 3, 2000) 406:536-540.
• West, Mike, et al., Predicting the clinical status of human breast cancer by using gene expression profiles, Proc. Natl. Acad. Sci., (Sep. 25, 2001) 98:20:11462-11467.

All references cited herein, including patents, patent applications, and publications, are hereby incorporated by reference in their entireties, whether previously specifically incorporated or not.

Having now fully described this invention, it will be appreciated by those skilled in the art that the same can be performed within a wide range of equivalent parameters, concentrations, and conditions without departing from the spirit and scope of the invention and without undue experimentation.

While this invention has been described in connection with specific embodiments thereof, it will be understood that it is capable of further modifications. This application is intended to cover any variations, uses, or adaptations of the invention following, in general, the principles of the invention and including such departures from the present disclosure as come within known or customary practice within the art to which the invention pertains and as may be applied to the essential features hereinbefore set forth.

Claims

1. A method to determine the breast cancer stage of a ductal lavage or fine needle aspiration sample from a subject comprising assaying said sample for expression of 5 or more of the genes in any one of Tables 2-5, which genes are correlated with one or more stages of breast cancer, and determining the breast cancer stage of said sample based on the level of expression of said genes.

2. The method of claim 1 wherein said assaying comprises preparing mRNA from said sample.

3. The method of claim 1 wherein said mRNA is amplified.

4. The method of claim 1 wherein said assaying comprises detecting expression by use of an array.

5. The method of claim 1 wherein said assaying comprises detecting expression by use of a microarray comprising polynucleotides which hybridize to said genes.

6. The method of claim 1 wherein said expression of 5 or more genes is correlated with ADH, DCIS, and/or IDC.

7. The method of claim 1 wherein said one or more genes are correlated with normal or abnormal cells.

8. The method of claim 5 wherein said array comprises polynucleotides which hybridize to more than 5 of the genes in any one of Tables 2-5.

9. The method of claim 1 wherein said subject is human.

10. The method of claim 1 wherein said subject is afflicted with, or suspected of having, breast cancer.

11. The method of claim 5 wherein said array comprises polynucleotides which hybridize to more than five of the genes in Table 2.

12. The method of claim 5 wherein said array comprises polynucleotides which hybridize to more than five of the genes in Table 3.

13. The method of claim 5 wherein said array comprises polynucleotides which hybridize to more than five of the genes in Table 4.

14. The method of claim 5 wherein said array comprises polynucleotides which hybridize to more than five of the genes in Table 5.

15. The method of claim 1 wherein said sample is a microdissected sample.

16. The method of claim 15 wherein said sample is microdissected via laser capture microdissection.

17. The method of claim 6 wherein said one or more genes are correlated with ADH or correlated with DCIS or correlated with IDC.

18. The method of claim 6 wherein said assaying comprises preparing mRNA from said sample and optionally amplifying said mRNA.

19. The method of claim 6 wherein said assaying comprises detecting expression by use of an array.

20. The method of claim 6 wherein said subject is human, optionally afflicted with, or suspected of having, breast cancer.