Repbase Update-a Database of Repetitive Sequences

Information

  • Research Project
  • 8116078
  • ApplicationId
    8116078
  • Core Project Number
    P41LM006252
  • Full Project Number
    5P41LM006252-14
  • Serial Number
    6252
  • FOA Number
    RFA-LM-08-001
  • Sub Project Id
  • Project Start Date
    9/30/1996 - 28 years ago
  • Project End Date
    4/30/2014 - 10 years ago
  • Program Officer Name
    YE, JANE
  • Budget Start Date
    5/1/2011 - 13 years ago
  • Budget End Date
    4/30/2012 - 12 years ago
  • Fiscal Year
    2011
  • Support Year
    14
  • Suffix
  • Award Notice Date
    7/12/2011 - 13 years ago

Repbase Update-a Database of Repetitive Sequences

DESCRIPTION (provided by applicant): Repbase Update (http://www.girinst.org) is a relational database of repetitive elements representing over 8500 families and subfamilies of transposable elements (TEs) from eukaryotes. Each family is identifiable by a unique name, and its annotation includes species of origin, systematic classification, keywords, reference to the scientific literature, names of contributors, brief commentaries, etc. Most of the 5198 repetitive families added to Repbase Update (RU) during the last cycle are either unreported anywhere else, or have been thoroughly revised. Our approach is based on computer-assisted reconstruction and analysis of public DMA sequence data. Original contributions are first reported in an electronic journal named Repbase Reports. RU is used throughout the world by academic and research institutions for basic research and genome annotations. This database became a unique resource for individual research projects of biological and medical importance and for creation of secondary databases. During the next five years RU needs to grow at the rate of ~1000 entries per year to meet the demand created by the genome-sequencing projects. This information will be extracted, reconstructed, analyzed, annotated, classified, indexed and made available to researchers over the internet. In addition we will discover and study diverse superfamilies and conserved repeats, which are of primary interest for cutting-edge research. We propose the following specific aims to meet the challenge: (1) continue detection, reconstruction, annotation and electronic distribution of reference sequences for repetitive families from all sequenced eukaryotic species (2) continue studies of TEs in newly sequenced eukaryotic genomes in collaboration with sequencing consortia (3) continue systematic identification and analysis of new superfamilies and classes of transposable elements (TEs) (4) excavate and characterize remnants of TEs overrepresented in conserved non-coding regions and cis-regulatory modules in eukaryotic genomes (5) organize two conferences devoted to stimulation of Repbase-related research, data submission, data dissemination, training and standardization of repeat nomenclature.

IC Name
NATIONAL LIBRARY OF MEDICINE
  • Activity
    P41
  • Administering IC
    LM
  • Application Type
    5
  • Direct Cost Amount
  • Indirect Cost Amount
  • Total Cost
    546408
  • Sub Project Total Cost
  • ARRA Funded
    False
  • CFDA Code
    879
  • Ed Inst. Type
  • Funding ICs
    NLM:546408\
  • Funding Mechanism
    Other Research Related
  • Study Section
    ZLM1
  • Study Section Name
    Special Emphasis Panel
  • Organization Name
    GENETIC INFORMATION RESEARCH INSTITUTE
  • Organization Department
  • Organization DUNS
    946494259
  • Organization City
    MOUNTAIN VIEW
  • Organization State
    CA
  • Organization Country
    UNITED STATES
  • Organization Zip Code
    940430808
  • Organization District
    UNITED STATES