The Gene Ontology's Reference Genome Project: A Unified Framework for Functional Annotation across Species

被引：92

作者：

Gaudet, Pascale ^{[1
]}

Chisholm, Rex ^{[1
]}

Berardini, Tanya ^{[2
]}

Dimmer, Emily ^{[3
]}

Engel, Stacia R. ^{[4
]}

Fey, Petra ^{[1
]}

Hill, David P. ^{[5
]}

Howe, Doug ^{[6
]}

Hu, James C. ^{[7
]}

Huntley, Rachael ^{[3
]}

Khodiyar, Varsha K. ^{[8
]}

Kishore, Ranjana ^{[9
]}

Li, Donghui ^{[2
]}

Lovering, Ruth C. ^{[8
]}

McCarthy, Fiona ^{[10
]}

Ni, Li ^{[5
]}

Petri, Victoria ^{[11
]}

Siegele, Deborah A. ^{[7
]}

Tweedie, Susan ^{[12
]}

Van Auken, Kimberly ^{[9
]}

Wood, Valerie ^{[13
]}

Basu, Siddhartha ^{[1
]}

Carbon, Seth ^{[14
]}

Dolan, Mary ^{[5
]}

Mungall, Christopher J. ^{[14
]}

Dolinski, Kara ^{[15
]}

Thomas, Paul ^{[16
]}

Ashburner, Michael ^{[12
]}

Blake, Judith A. ^{[5
]}

Cherry, J. Michael ^{[4
]}

Lewis, Suzanna E. ^{[14
]}

机构：

[1] Northwestern Univ, Chicago, IL 60611 USA

[2] Carnegie Inst, Dept Plant Biol, Stanford, CA USA

[3] UniProt, EBI, Hinxton, England

[4] Stanford Univ, Dept Genet, Stanford, CA 94305 USA

[5] Jackson Lab, Bar Harbor, ME 04609 USA

[6] Univ Oregon, Eugene, OR 97403 USA

[7] Texas A&M Univ, College Stn, TX USA

[8] UCL, Dept Med, London, England

[9] CALTECH, Pasadena, CA 91125 USA

[10] Mississippi State Univ, Starkville, MS USA

[11] Med Coll Wisconsin, Milwaukee, WI 53226 USA

[12] Univ Cambridge, Dept Genet, Cambridge CB2 3EH, England

[13] Wellcome Trust Sanger Inst, Hinxton, England

[14] Univ Calif Berkeley, Lawrence Berkeley Lab, Berkeley, CA 94720 USA

[15] Princeton Univ, Princeton, NJ 08544 USA

[16] SRI Int, Menlo Pk, CA 94025 USA

来源：

PLOS COMPUTATIONAL BIOLOGY | 2009年 / 5卷 / 07期

基金：

英国医学研究理事会;

关键词：

SEQUENCE ANNOTATION; PROTEIN; ORTHOLOGY; DATABASE; PANTHER;

D O I：

10.1371/journal.pcbi.1000431

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

The Gene Ontology (GO) is a collaborative effort that provides structured vocabularies for annotating the molecular function, biological role, and cellular location of gene products in a highly systematic way and in a species-neutral manner with the aim of unifying the representation of gene function across different organisms. Each contributing member of the GO Consortium independently associates GO terms to gene products from the organism(s) they are annotating. Here we introduce the Reference Genome project, which brings together those independent efforts into a unified framework based on the evolutionary relationships between genes in these different organisms. The Reference Genome project has two primary goals: to increase the depth and breadth of annotations for genes in each of the organisms in the project, and to create data sets and tools that enable other genome annotation efforts to infer GO annotations for homologous genes in their organisms. In addition, the project has several important incidental benefits, such as increasing annotation consistency across genome databases, and providing important improvements to the GO's logical structure and biological content.

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