Open Access
Gene Ontology Consortium. The Gene Ontology (GO) database and informatics resource
Harris Ma,Jennifer I. Clark,Amelia Ireland,Jane Lomax,Michael Ashburner,R. Foulger,Karen Eilbeck,Suzanna E. Lewis,B. Marshall,Christopher J. Mungall,J. Richter,Gerald M. Rubin,Blake Ja,Carol J. Bult,Mary E. Dolan,H. Drabkin,Janan T. Eppig,David P. Hill,L. Ni,Martin Ringwald,Rama Balakrishnan,J. M. Cherry,Karen R. Christie,Maria C. Costanzo,Selina S. Dwight,Stacia R. Engel,Dianna G. Fisk,Jodi E. Hirschman,Eurie L. Hong,Robert S. Nash,Anand Sethuraman,Chandra L. Theesfeld,David Botstein,Kara Dolinski,Becket Feierbach,Tanya Z. Berardini,S. Mundodi,Seung Y. Rhee,Rolf Apweiler,Daniel Barrell,Evelyn Camon,E. Dimmer,V. Lee,Rex L. Chisholm,Pascale Gaudet,Warren A. Kibbe,Ranjana Kishore,Erich M. Schwarz,Paul W. Sternberg,M. Gwinn,Linda Hannick,Jennifer R. Wortman,Matthew Berriman,Valerie Wood,N. de sur la Cruz,Peter J. Tonellato,Pankaj Jaiswal,Trent E. Seigfried,Ra White +58 more
TLDR
The Gene Ontology (GO) project provides structured, controlled vocabularies and classifications that cover several domains of molecular and cellular biology and are freely available for community use in the annotation of genes, gene products and sequences.Abstract:
The Gene Ontology (GO) project (http://www. geneontology.org/) provides structured, controlled vocabularies and classifications that cover several domains of molecular and cellular biology and are freely available for community use in the annotation of genes, gene products and sequences. Many model organism databases and genome annotation groups use the GO and contribute their annotation sets to the GO resource. The GO database integrates the vocabularies and contributed annotations and provides full access to this information in several formats. Members of the GO Consortium continually work collectively, involving outside experts as needed, to expand and update the GO vocabularies. The GO Web resource also provides access to extensive documentation about the GO project and links to applications that use GO data for functional analyses.read more
Citations
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Journal ArticleDOI
Genome-wide analysis of Polycomb targets in Drosophila melanogaster
Yuri B. Schwartz,Tatyana G. Kahn,David A. Nix,David A. Nix,Xiao Yong Li,Richard Bourgon,Mark D. Biggin,Vincenzo Pirrotta +7 more
TL;DR: The distribution of the PcG proteins PC, E(Z and PSC and of trimethylation of histone H3 Lys27 (me3K27) in the D. melanogaster genome is determined and the role of these proteins in development, differentiation and disease is determined.
Journal ArticleDOI
Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris
Randy M. Berka,Igor V. Grigoriev,Robert Otillar,Asaf Salamov,Jane Grimwood,Ian D. Reid,Nadeeza Ishmael,Tricia John,Corinne Darmond,Marie Claude Moisan,Bernard Henrissat,Pedro M. Coutinho,Vincent Lombard,Donald O. Natvig,Erika Lindquist,Jeremy Schmutz,Susan Lucas,Paul Harris,Justin Powlowski,Annie Bellemare,David Taylor,Gregory Butler,Ronald P. de Vries,Iris E. Allijn,Joost Van Den Brink,Sophia Ushinsky,Reginald Storms,Amy Jo Powell,Ian T. Paulsen,Liam D. H. Elbourne,Scott E. Baker,Jon K. Magnuson,Sylvie Laboissiere,A. John Clutterbuck,Diego Martinez,Diego Martinez,Mark Wogulis,Alfredo Lopez de Leon,Michael Rey,Adrian Tsang +39 more
TL;DR: These genomes are the first described for thermophilic eukaryotes and the first complete telomere-to-telomere genomes for filamentous fungi and suggest that both thermophiles are capable of hydrolyzing all major polysaccharides found in biomass.
Journal ArticleDOI
The Mammalian Phenotype Ontology as a tool for annotating, analyzing and comparing phenotypic information.
TL;DR: The Mammalian Phenotype Ontology enables robust annotation of mammalian phenotypes in the context of mutations, quantitative trait loci and strains that are used as models of human biology and disease.
Journal ArticleDOI
The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation
TL;DR: What the original concepts were, what their present status is and how they may be expected to contribute to future system biology approaches are described.
Journal ArticleDOI
Immune response in silico (IRIS): immune-specific genes identified from a compendium of microarray expression data
Alexander R. Abbas,Daryl T. Baldwin,Y Ma,Wenjun Ouyang,A. Gurney,Flavius Martin,Sherman Fong,M. van Lookeren Campagne,Paulj. Godowski,P M Williams,Andrew C. Chan,Hilary Clark +11 more
TL;DR: A compendium of microarray expression data for virtually all human genes from six key immune cell types and their activated and differentiated states, indicating that immune specificity is important at many points in the signaling pathways of the immune response.
Related Papers (5)
Gene Ontology: tool for the unification of biology
M Ashburner,Catherine A. Ball,Judith A. Blake,David Botstein,Heather Butler,J. M. Cherry,Allan Peter Davis,Kara Dolinski,Selina S. Dwight,J.T. Eppig,Midori A. Harris,David P. Hill,Laurie Issel-Tarver,Andrew Kasarskis,Suzanna E. Lewis,John C. Matese,Joel E. Richardson,M. Ringwald,Gerald M. Rubin,Gavin Sherlock +19 more