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ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes

Ovcharenko, Ivan ; Nobrega, Marcelo A. ; Loots, Gabriela G. ; Stubbs, Lisa

Nucleic acids research, 2004-07, Vol.32 (suppl-2), p.W280-W286 [Periódico revisado por pares]

England: Oxford University Press

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  • Título:
    ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes
  • Autor: Ovcharenko, Ivan ; Nobrega, Marcelo A. ; Loots, Gabriela G. ; Stubbs, Lisa
  • Assuntos: ALIGNMENT ; Animals ; BASIC BIOLOGICAL SCIENCES ; Binding Sites ; Computer Graphics ; DNA ; Drosophila ; Fishes - genetics ; Fugu ; Gallus gallus ; GENES ; Genome ; Genomics ; Humans ; Internet ; Mice ; Rats ; Regulatory Sequences, Nucleic Acid ; Sequence Alignment ; Sequence Analysis, DNA ; Software ; Synteny ; Systems Integration ; TRANSCRIPTION FACTORS ; Transcription Factors - metabolism ; VERTEBRATES
  • É parte de: Nucleic acids research, 2004-07, Vol.32 (suppl-2), p.W280-W286
  • Notas: To whom correspondence should be addressed. Tel: +1 925 422 5035; Fax: +1 925 422 2099; Email: ovcharenko1@llnl.gov
 Correspondence may also be addressed to Lisa Stubbs. Email: stubbs5@llnl.gov
    local:gkh355
    istex:483AE00F19AE34E3E24A8AD9CE9CFE8819CFBFD8
    Received February 11, 2004; Accepted February 25, 2004
    ark:/67375/HXZ-PX9P1PDW-Z
    ObjectType-Article-2
    SourceType-Scholarly Journals-1
    ObjectType-Feature-1
    content type line 23
    ObjectType-Article-1
    ObjectType-Feature-2
    USDOE
    W-7405-ENG-48
    UCRL-JRNL-201727
    Correspondence may also be addressed to Lisa Stubbs. Email: stubbs5@llnl.gov
    The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated.
    To whom correspondence should be addressed. Tel: +1 925 422 5035; Fax: +1 925 422 2099; Email: ovcharenko1@llnl.gov
    2004, the authors
  • Descrição: With an increasing number of vertebrate genomes being sequenced in draft or finished form, unique opportunities for decoding the language of DNA sequence through comparative genome alignments have arisen. However, novel tools and strategies are required to accommodate this large volume of genomic information and to facilitate the transfer of predictions generated by comparative sequence alignment to researchers focused on experimental annotation of genome function. Here, we present the ECR Browser, a tool that provides easy and dynamic access to whole genome alignments of human, mouse, rat and fish sequences. This web-based tool (http://ecrbrowser.dcode.org) provides the starting point for discovery of novel genes, identification of distant gene regulatory elements and prediction of transcription factor binding sites. The genome alignment portal of the ECR Browser also permits fast and automated alignments of any user-submitted sequence to the genome of choice. The interconnection of the ECR Browser with other DNA sequence analysis tools creates a unique portal for studying and exploring vertebrate genomes.
  • Editor: England: Oxford University Press
  • Idioma: Inglês
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  • Realização: ABCD-USP USP   Logos de Redes Sociais: Freepik

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