Reorganizing the protein space at the Universal Protein Resource (UniProt)

被引:1118
作者
Apweiler, Rolf [2 ]
Martin, Maria Jesus [2 ]
O'Donovan, Claire [2 ]
Magrane, Michele [2 ]
Alam-Faruque, Yasmin [2 ]
Antunes, Ricardo [2 ]
Casanova, Elisabet Barrera [2 ]
Bely, Benoit [2 ]
Bingley, Mark [2 ]
Bower, Lawrence [2 ]
Bursteinas, Borisas [2 ]
Chan, Wei Mun [2 ]
Chavali, Gayatri [2 ]
Da Silva, Alan [2 ]
Dimmer, Emily [2 ]
Eberhardt, Ruth [2 ]
Fazzini, Francesco [2 ]
Fedotov, Alexander [2 ]
Garavelli, John [2 ]
Castro, Leyla Garcia [2 ]
Gardner, Michael [2 ]
Hieta, Reija [2 ]
Huntley, Rachael [2 ]
Jacobsen, Julius [2 ]
Legge, Duncan [2 ]
Liu, Wudong [2 ]
Luo, Jie [2 ]
Orchard, Sandra [2 ]
Patient, Samuel [2 ]
Pichler, Klemens [2 ]
Poggioli, Diego [2 ]
Pontikos, Nikolas [2 ]
Pundir, Sangya [2 ]
Rosanoff, Steven [2 ]
Sawford, Tony [2 ]
Sehra, Harminder [2 ]
Turner, Edward [2 ]
Wardell, Tony [2 ]
Watkins, Xavier [2 ]
Corbett, Matt [2 ]
Donnelly, Mike [2 ]
van Rensburg, Pieter [2 ]
Goujon, Mickael [2 ]
McWilliam, Hamish [2 ]
Lopez, Rodrigo [2 ]
Xenarios, Ioannis [3 ]
Bougueleret, Lydie [3 ]
Bridge, Alan [3 ]
Poux, Sylvain [3 ]
Redaschi, Nicole [3 ]
机构
[1] Wellcome Trust Genome Campus, European Bioinformat Inst, EMBL Outstn, Cambridge CB10 1SD, England
[2] European Bioinformat Inst EBI, Cambridge CB10 1SD, England
[3] SIB Swiss Inst Bioinformat, CH-1015 Lausanne, Switzerland
[4] PIR, Newark, DE USA
基金
美国国家科学基金会; 美国国家卫生研究院;
关键词
SEQUENCE DATABASE;
D O I
10.1093/nar/gkr981
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The mission of UniProt is to support biological research by providing a freely accessible, stable, comprehensive, fully classified, richly and accurately annotated protein sequence knowledgebase, with extensive cross-references and querying interfaces. UniProt is comprised of four major components, each optimized for different uses: the UniProt Archive, the UniProt Knowledgebase, the UniProt Reference Clusters and the UniProt Metagenomic and Environmental Sequence Database. A key development at UniProt is the provision of complete, reference and representative proteomes. UniProt is updated and distributed every 4 weeks and can be accessed online for searches or download at www.uniprot.org.
引用
收藏
页码:D71 / D75
页数:5
相关论文
共 12 条
[1]  
Brunak S, 2002, SCIENCE, V298, P1333
[2]  
Chen C., 2001, PLOS ONE, V6
[3]   A new bioinformatics analysis tools framework at EMBL-EBI [J].
Goujon, Mickael ;
McWilliam, Hamish ;
Li, Weizhong ;
Valentin, Franck ;
Squizzato, Silvano ;
Paern, Juri ;
Lopez, Rodrigo .
NUCLEIC ACIDS RESEARCH, 2010, 38 :W695-W699
[4]   Ensembl 2009 [J].
Hubbard, T. J. P. ;
Aken, B. L. ;
Ayling, S. ;
Ballester, B. ;
Beal, K. ;
Bragin, E. ;
Brent, S. ;
Chen, Y. ;
Clapham, P. ;
Clarke, L. ;
Coates, G. ;
Fairley, S. ;
Fitzgerald, S. ;
Fernandez-Banet, J. ;
Gordon, L. ;
Graf, S. ;
Haider, S. ;
Hammond, M. ;
Holland, R. ;
Howe, K. ;
Jenkinson, A. ;
Johnson, N. ;
Kahari, A. ;
Keefe, D. ;
Keenan, S. ;
Kinsella, R. ;
Kokocinski, F. ;
Kulesha, E. ;
Lawson, D. ;
Longden, I. ;
Megy, K. ;
Meidl, P. ;
Overduin, B. ;
Parker, A. ;
Pritchard, B. ;
Rios, D. ;
Schuster, M. ;
Slater, G. ;
Smedley, D. ;
Spooner, W. ;
Spudich, G. ;
Trevanion, S. ;
Vilella, A. ;
Vogel, J. ;
White, S. ;
Wilder, S. ;
Zadissa, A. ;
Birney, E. ;
Cunningham, F. ;
Curwen, V. .
NUCLEIC ACIDS RESEARCH, 2009, 37 :D690-D697
[5]   InterPro: the integrative protein signature database [J].
Hunter, Sarah ;
Apweiler, Rolf ;
Attwood, Teresa K. ;
Bairoch, Amos ;
Bateman, Alex ;
Binns, David ;
Bork, Peer ;
Das, Ujjwal ;
Daugherty, Louise ;
Duquenne, Lauranne ;
Finn, Robert D. ;
Gough, Julian ;
Haft, Daniel ;
Hulo, Nicolas ;
Kahn, Daniel ;
Kelly, Elizabeth ;
Laugraud, Aurelie ;
Letunic, Ivica ;
Lonsdale, David ;
Lopez, Rodrigo ;
Madera, Martin ;
Maslen, John ;
McAnulla, Craig ;
McDowall, Jennifer ;
Mistry, Jaina ;
Mitchell, Alex ;
Mulder, Nicola ;
Natale, Darren ;
Orengo, Christine ;
Quinn, Antony F. ;
Selengut, Jeremy D. ;
Sigrist, Christian J. A. ;
Thimma, Manjula ;
Thomas, Paul D. ;
Valentin, Franck ;
Wilson, Derek ;
Wu, Cathy H. ;
Yeats, Corin .
NUCLEIC ACIDS RESEARCH, 2009, 37 :D211-D215
[6]   Infrastructure for the life sciences: design and implementation of the UniProt website [J].
Jain, Eric ;
Bairoch, Amos ;
Duvaud, Severine ;
Phan, Isabelle ;
Redaschi, Nicole ;
Suzek, Baris E. ;
Martin, Maria J. ;
McGarvey, Peter ;
Gasteiger, Elisabeth .
BMC BIOINFORMATICS, 2009, 10
[7]   The International Protein Index: An integrated database for proteomics experiments [J].
Kersey, PJ ;
Duarte, J ;
Williams, A ;
Karavidopoulou, Y ;
Birney, E ;
Apweiler, R .
PROTEOMICS, 2004, 4 (07) :1985-1988
[8]   UniProt archive [J].
Leinonen, R ;
Diez, FG ;
Binns, D ;
Fleischmann, W ;
Lopez, R ;
Apweiler, R .
BIOINFORMATICS, 2004, 20 (17) :3236-3237
[9]   UniProtJAPI: a remote API for accessing UniProt data [J].
Patient, Samuel ;
Wieser, Daniela ;
Kleen, Michael ;
Kretschmann, Ernst ;
Martin, Maria Jesus ;
Apweiler, Rolf .
BIOINFORMATICS, 2008, 24 (10) :1321-1322
[10]   NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins [J].
Pruitt, Kim D. ;
Tatusova, Tatiana ;
Maglott, Donna R. .
NUCLEIC ACIDS RESEARCH, 2007, 35 :D61-D65