InterPro: The integrative protein signature database

Nucleic Acids Research

Volumn 37, Issue SUPPL. 1, 2009, Pages

  Hunter, Sarah ^a   Apweiler, Rolf ^a   Attwood, Teresa K ^b   Bairoch, Amos ^c   Bateman, Alex ^d   Binns, David ^a   Bork, Peer ^e   Das, Ujjwal ^a   Daugherty, Louise ^a   Duquenne, Lauranne ^f   Finn, Robert D ^d   Gough, Julian ^g   Haft, Daniel ^h   Hulo, Nicolas ^c   Kahn, Daniel ^f   Kelly, Elizabeth ⁱ   Laugraud, Aurélie ^f   Letunic, Ivica ^e   Lonsdale, David ^a   Lopez, Rodrigo ^a   Madera, Martin ^g   Maslen, John ^a   Mcanulla, Craig ^a   McDowall, Jennifer ^a   Mistry, Jaina ^d   Mitchell, Alex ^a,b   Mulder, Nicola ⁱ   Natale, Darren ^j   Orengo, Christine ^k   Quinn, Antony F ^a   Selengut, Jeremy D ^h   Sigrist, Christian J A ^c   Thimma, Manjula ^a   Thomas, Paul D ^l   Valentin, Franck ^a   Wilson, Derek ^m   Wu, Cathy H ^j   Yeats, Corin ^k   more..

^a EUROPEAN BIOINFORMATICS INSTITUTE   (United Kingdom)

^b UNIVERSITY OF MANCHESTER   (United Kingdom)

^c SWISS INSTITUTE OF BIOINFORMATICS   (Switzerland)

^d WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

^e EUROPEAN MOLECULAR BIOLOGY LABORATORY   (Germany)

^f UNIVERSITÉ LYON 1   (France)

^g UNIVERSITY OF BRISTOL   (United Kingdom)

^h J CRAIG VENTER INSTITUTE   (United States)

ⁱ UNIVERSITY OF CAPE TOWN   (South Africa)

^j GEORGETOWN UNIVERSITY MEDICAL CENTER   (United States)

^k UNIVERSITY COLLEGE LONDON   (United Kingdom)

^l SRI INTERNATIONAL   (United States)

^m MRC LABORATORY OF MOLECULAR BIOLOGY   (United Kingdom)

more..

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIOINFORMATICS; COMPUTER INTERFACE; COMPUTER PROGRAM; FACTUAL DATABASE; INTERNET; INTERPRO DATABASE; PREDICTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DATABASE; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE;

DATABASES, PROTEIN; PROTEINS; SEQUENCE ANALYSIS, PROTEIN; SYSTEMS INTEGRATION;

EID: 58149203231     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkn785     Document Type: Article

References (26)

1. Mulder,N.J., Apweiler,R., Attwood,T.K., Bairoch,A., Bateman,A., Binns,B., Bork,P., Buillard,V., Cerutti,L., Copley,R. et al. (2007) New developments in the InterPro database. Nucleic Acids Res. 35, D224-D228.
2. Hulo,N., Bairoch,A., Bulliard,V., Cerutti,L., De Castro,E., Langendijk-Genevaux,P.S., Pagni,M. and Sigrist,C.J.A. (2006) The PROSITE database. Nucleic Acids Res., 34, D227-D230.
3. Attwood,T.K., Bradley,P., Flower,D.R., Gaulton,A., Maudling,N., Mitchell,A., Moulton,G., Nordle,A., Paine,K., Taylor,P. et al. (2003) PRINTS and its automatic supplement, prePRINTS. Nucleic Acids Res., 31, 400-402.
4. Finn,R.D., Tate,J., Mistry,J., Coggill,P.C., Sammut,J.S., Hotz,H.R., Ceric,G., Forslund,K., Eddy,S.R., Sonnhammer,E.L. et al. (2008) The Pfam protein families database. Nucleic Acids Res., 36, D281-D288.
5. Bru,C., Courcelle,E., Carrére,S., Beausse,Y., Dalmar,S. and Kahn,D. (2005) The ProDom database of protein domain families: More emphasis on 3D. Nucleic Acids Res., 33, D212-D215.
6. Letunic,I., Copley,R.R., Pils,B., Pinkert,S., Schultz,J. and Bork,P. (2006) SMART 5: Domains in the context of genomes and networks. Nucleic Acids Res., 34, D257-D260.
7. Haft,D.H., Selengut,J.D. and White,O. (2003) The TIGRFAMs database of protein families. Nucleic Acids Res., 31, 371-373.
8. Nikolskaya,A.N., Arighi,C.N., Huang,H., Barker,W.C. and Wu,C.H. (2006) PIRSF family classification system for protein functional and evolutionary analysis. Evol. Bioinform. Online, 2, 197-209.
9. Wilson,D., Madera,M., Vogel,C., Chothia,C. and Gough,J. (2007) The SUPERFAMILY database in 2007: Families and functions. Nucleic Acids Res., 35, D308-D313.
10. Mi,H., Guo,N., Kejariwal,A. and Thomas,P.D. (2007) PANTHER version 6: protein sequence and function evolution data with expanded representation of biological pathways. Nucleic Acids Res., 35 D247-D252.
11. Yeats,C., Lees,J., Reid,A., Kellam,P., Martin,N., Liu,X. and Orengo,C. (2008) Gene3D: Comprehensive structural and functional annotation of genomes. Nucleic Acids Res., 36, D414-D418.
12. UniProt Consortium (2008) The universal protein resource (UniProt). Nucleic Acids Res., 36, D190-D195.
13. Quevillon,E., Silventoinen,V., Pillai,S., Harte,N., Mulder,N., Apweiler,R. and Lopez,R. (2005) InterProScan: Protein domains identifier. Nucleic Acids Res., 33, W116-W120.
14. Leinonen,R., Diez,F.G., Binns,D., Fleischmann,W., Lopez,R. and Apweiler,R. (2004) UniProt Archive. Bioinformatics, 20, 3236-3237.
15. Brayton,K.A., Lau,A.O.T., Herndon,D.R., Hannick,L., Kappmeyer,L.S., Berens,S.J., Bidwell,S.L., Brown,W.C., Crabtree,J., Fadrosh,D. et al. (2007) Genome Sequence of Babesia bovis and Comparative Analysis of Apicomplexan Hemoprotozoa. PLoS Pathogens, 3, e148.
16. Itoh,T., Tanaka1,T., Barrero,R.A., Yamasaki,C., Fujii,Y., Hilton,P.B., Antonio,B.A., Aono,H., Apweiler,R., Bruskiewich,R. et al. (2007) Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana. Genome Res., 17, 175-183.
17. Harris,M.A., Clark,J., Ireland,A., Lomax,J., Ashburner,M., Foulger,R., Eilbeck,K., Lewis,S., Marshall,B., Mungall,C. et al. (2004) The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res., 32, D258-D261.
18. Rawlings,N.D., Tolle,D.P. and Barrett,A.J. (2004) MEROPS: The peptidase database. Nucleic Acids Res., 32, D160-D164.
19. Kerrien,S., Alam-Faruque,Y., Aranda,B., Bancarz,I., Bridge,A., Derow,C., Dimmer,E., Feuermann,M., Friedrichsen,A., Huntley,R. et al. (2007) IntAct - Open Source Resource for Molecular Interaction Data. Nucleic Acids Res., 35, D561-D565.
20. Petryszak,R., Kretschmann,E., Wieser,D. and Apweiler,R. (2005) The predictive power of the CluSTr database. Bioinformatics, 21, 3604-3609.
21. Berman,H., Henrick,K., Nakamura,H. and Markley,J.L. (2007) The worldwide Protein Data Bank (wwPDB): Ensuring a single, uniform archive of PDB data. Nucleic Acid Res., 35, D301-D303.
22. Pieper,U., Eswar,N., Braberg,H., Madhusudhan,M.S., Davis,F., Stuart,A.C., Mirkovic,N., Rossi,A., Marti-Renom,M.A., Fiser,A. et al. (2004) MODBASE, a database of annotated comparative protein structure models, and associated resources. Nucleic Acids Res., 32, D217-D222.
23. Kopp,J. and Schwede,T. (2006) The SWISS-MODEL Repository: New features and functionalities. Nucleic Acids Res., 34, D315-D318.
24. Labarga,A., Valentin,F., Anderson,M. and Lopez,R. (2007) Web Services at the European Bioinformatics Institute. Nucleic Acids Res., 35 W6-W11.
25. Prlic,A., Down,T. and Hubbard,T.J.P. (2005) Adding some SPICE to DAS. Bioinformatics, 21, ii40-ii41.
26. Jiminez,R.C., Quinn,A.F., Garcia,A., Labarga,A., O'Neill,K., Martinez,F., Salazar,G.A. and Hermjakob,H. (2008) Dasty2, an ajax protein DAS client. Bioinformatics, 24, 2119-2121.