NovelFam3000--uncharacterized human protein domains conserved across model organisms

BMC Genomics
Danielle KemmerWyeth W Wasserman

Abstract

Despite significant efforts from the research community, an extensive portion of the proteins encoded by human genes lack an assigned cellular function. Most metazoan proteins are composed of structural and/or functional domains, of which many appear in multiple proteins. Once a domain is characterized in one protein, the presence of a similar sequence in an uncharacterized protein serves as a basis for inference of function. Thus knowledge of a domain's function, or the protein within which it arises, can facilitate the analysis of an entire set of proteins. From the Pfam domain database, we extracted uncharacterized protein domains represented in proteins from humans, worms, and flies. A data centre was created to facilitate the analysis of the uncharacterized domain-containing proteins. The centre both provides researchers with links to dispersed internet resources containing gene-specific experimental data and enables them to post relevant experimental results or comments. For each human gene in the system, a characterization score is posted, allowing users to track the progress of characterization over time or to identify for study uncharacterized domains in well-characterized genes. As a test of the system, a subset of 39...Continue Reading

References

Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Feb 21, 1998·Nucleic Acids Research·F CorpetD Kahn
Jan 27, 1999·Bioinformatics·S R Eddy
Mar 24, 2000·Science·G M RubinS Lewis
Apr 4, 2000·The Journal of Cell Biology·S SiniossoglouE Hurt
Aug 16, 2000·Experimental Cell Research·M R HojaC Höög
Jun 19, 2001·Trends in Biochemical Sciences·F EisenhaberG Kreil
Dec 4, 2001·Genome Research·B LenhardW W Wasserman
Mar 21, 2002·Proceedings of the National Academy of Sciences of the United States of America·Andrew I SuJohn B Hogenesch
Mar 26, 2002·FEBS Letters·Richard R CopleyPeer Bork
Jun 5, 2002·Genome Research·W James KentDavid Haussler
Aug 28, 2002·The Journal of Cell Biology·Janet M CronshawMichael J Matunis
Sep 17, 2002·Briefings in Bioinformatics·Florence ServantDaniel Kahn
Jan 10, 2003·Nucleic Acids Research·Gary D BaderChristopher W V Hogue
Jan 10, 2003·Nucleic Acids Research·Nicola J MulderEvgueni M Zdobnov
Apr 19, 2003·FEMS Yeast Research·Edith BogengruberMichael Breitenbach
Apr 19, 2003·The Journal of Biological Chemistry·Chang Sheng GuoMathew J Thayer
Dec 19, 2003·Nucleic Acids Research·Alex BatemanSean R Eddy
May 5, 2004·Genome Research·Val CurwenMichele Clamp
Dec 21, 2004·Nucleic Acids Research·Amos BairochLai-Su L Yeh
Dec 21, 2004·Nucleic Acids Research·Huaiyu MiPaul D Thomas
Dec 21, 2004·Nucleic Acids Research·Nansheng ChenLincoln D Stein
Dec 21, 2004·Nucleic Acids Research·Rachel A DrysdaleUNKNOWN FlyBase Consortium
Dec 21, 2004·Nucleic Acids Research·Donna MaglottTatiana Tatusova
Feb 5, 2005·Molecular & Cellular Proteomics : MCP·Sandra OrchardRolf Apweiler
Jun 21, 2005·Molecular & Cellular Proteomics : MCP·Emily HodgesChrister Höög
Dec 17, 2005·Genome Biology·Danielle KemmerB F Francis Ouellette

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Citations

May 10, 2007·Molecular and Cellular Biochemistry·Hui QianYumin Mao

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Methods Mentioned

BETA
transfection
transfections

Software Mentioned

Pfam
InterPro
Interolog Analysis
GeneLynx
BioWiki
Panther
WIKI
Interolog Analysis system
ELLS
BLAST

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