Literature DB >> 14681372

UniProt: the Universal Protein knowledgebase.

Rolf Apweiler1, Amos Bairoch, Cathy H Wu, Winona C Barker, Brigitte Boeckmann, Serenella Ferro, Elisabeth Gasteiger, Hongzhan Huang, Rodrigo Lopez, Michele Magrane, Maria J Martin, Darren A Natale, Claire O'Donovan, Nicole Redaschi, Lai-Su L Yeh.   

Abstract

To provide the scientific community with a single, centralized, authoritative resource for protein sequences and functional information, the Swiss-Prot, TrEMBL and PIR protein database activities have united to form the Universal Protein Knowledgebase (UniProt) consortium. Our mission is to provide a comprehensive, fully classified, richly and accurately annotated protein sequence knowledgebase, with extensive cross-references and query interfaces. The central database will have two sections, corresponding to the familiar Swiss-Prot (fully manually curated entries) and TrEMBL (enriched with automated classification, annotation and extensive cross-references). For convenient sequence searches, UniProt also provides several non-redundant sequence databases. The UniProt NREF (UniRef) databases provide representative subsets of the knowledgebase suitable for efficient searching. The comprehensive UniProt Archive (UniParc) is updated daily from many public source databases. The UniProt databases can be accessed online (http://www.uniprot.org) or downloaded in several formats (ftp://ftp.uniprot.org/pub). The scientific community is encouraged to submit data for inclusion in UniProt.

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Year:  2004        PMID: 14681372      PMCID: PMC308865          DOI: 10.1093/nar/gkh131

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  23 in total

1.  TIGRFAMs: a protein family resource for the functional identification of proteins.

Authors:  D H Haft; B J Loftus; D L Richardson; F Yang; J A Eisen; I T Paulsen; O White
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

2.  RefSeq and LocusLink: NCBI gene-centered resources.

Authors:  K D Pruitt; D R Maglott
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

3.  Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.

Authors:  M Ashburner; C A Ball; J A Blake; D Botstein; H Butler; J M Cherry; A P Davis; K Dolinski; S S Dwight; J T Eppig; M A Harris; D P Hill; L Issel-Tarver; A Kasarskis; S Lewis; J C Matese; J E Richardson; M Ringwald; G M Rubin; G Sherlock
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

4.  A novel method for automatic functional annotation of proteins.

Authors:  W Fleischmann; S Möller; A Gateau; R Apweiler
Journal:  Bioinformatics       Date:  1999-03       Impact factor: 6.937

5.  Recent improvements to the PROSITE database.

Authors:  Nicolas Hulo; Christian J A Sigrist; Virginie Le Saux; Petra S Langendijk-Genevaux; Lorenza Bordoli; Alexandre Gattiker; Edouard De Castro; Philipp Bucher; Amos Bairoch
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

6.  PIRSF: family classification system at the Protein Information Resource.

Authors:  Cathy H Wu; Anastasia Nikolskaya; Hongzhan Huang; Lai-Su L Yeh; Darren A Natale; C R Vinayaka; Zhang-Zhi Hu; Raja Mazumder; Sandeep Kumar; Panagiotis Kourtesis; Robert S Ledley; Baris E Suzek; Leslie Arminski; Yongxing Chen; Jian Zhang; Jorge Louie Cardenas; Sehee Chung; Jorge Castro-Alvear; Georgi Dinkov; Winona C Barker
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

7.  PRINTS and its automatic supplement, prePRINTS.

Authors:  T K Attwood; P Bradley; D R Flower; A Gaulton; N Maudling; A L Mitchell; G Moulton; A Nordle; K Paine; P Taylor; A Uddin; C Zygouri
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

8.  The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003.

Authors:  Brigitte Boeckmann; Amos Bairoch; Rolf Apweiler; Marie-Claude Blatter; Anne Estreicher; Elisabeth Gasteiger; Maria J Martin; Karine Michoud; Claire O'Donovan; Isabelle Phan; Sandrine Pilbout; Michel Schneider
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

9.  The Protein Data Bank and structural genomics.

Authors:  John Westbrook; Zukang Feng; Li Chen; Huanwang Yang; Helen M Berman
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

Review 10.  Protein family classification and functional annotation.

Authors:  Cathy H Wu; Hongzhan Huang; Lai-Su L Yeh; Winona C Barker
Journal:  Comput Biol Chem       Date:  2003-02       Impact factor: 2.877

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  1078 in total

1.  Molecular mechanism of serotonin transporter inhibition elucidated by a new flexible docking protocol.

Authors:  Mari Gabrielsen; Rafał Kurczab; Aina W Ravna; Irina Kufareva; Ruben Abagyan; Zdzisław Chilmonczyk; Andrzej J Bojarski; Ingebrigt Sylte
Journal:  Eur J Med Chem       Date:  2011-10-20       Impact factor: 6.514

2.  Recent improvements to the PROSITE database.

Authors:  Nicolas Hulo; Christian J A Sigrist; Virginie Le Saux; Petra S Langendijk-Genevaux; Lorenza Bordoli; Alexandre Gattiker; Edouard De Castro; Philipp Bucher; Amos Bairoch
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

3.  PIRSF: family classification system at the Protein Information Resource.

Authors:  Cathy H Wu; Anastasia Nikolskaya; Hongzhan Huang; Lai-Su L Yeh; Darren A Natale; C R Vinayaka; Zhang-Zhi Hu; Raja Mazumder; Sandeep Kumar; Panagiotis Kourtesis; Robert S Ledley; Baris E Suzek; Leslie Arminski; Yongxing Chen; Jian Zhang; Jorge Louie Cardenas; Sehee Chung; Jorge Castro-Alvear; Georgi Dinkov; Winona C Barker
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

4.  The EMBL Nucleotide Sequence Database.

Authors:  Tamara Kulikova; Philippe Aldebert; Nicola Althorpe; Wendy Baker; Kirsty Bates; Paul Browne; Alexandra van den Broek; Guy Cochrane; Karyn Duggan; Ruth Eberhardt; Nadeem Faruque; Maria Garcia-Pastor; Nicola Harte; Carola Kanz; Rasko Leinonen; Quan Lin; Vincent Lombard; Rodrigo Lopez; Renato Mancuso; Michelle McHale; Francesco Nardone; Ville Silventoinen; Peter Stoehr; Guenter Stoesser; Mary Ann Tuli; Katerina Tzouvara; Robert Vaughan; Dan Wu; Weimin Zhu; Rolf Apweiler
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

5.  Onto-Tools: an ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments.

Authors:  Purvesh Khatri; Pratik Bhavsar; Gagandeep Bawa; Sorin Draghici
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

6.  NLProt: extracting protein names and sequences from papers.

Authors:  Sven Mika; Burkhard Rost
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

7.  Public web-based services from the European Bioinformatics Institute.

Authors:  Nicola Harte; Ville Silventoinen; Emmanuel Quevillon; Stephen Robinson; Kimmo Kallio; Xavier Fustero; Pravin Patel; Petteri Jokinen; Rodrigo Lopez
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

8.  IMID: integrated molecular interaction database.

Authors:  Sentil Balaji; Charles Mcclendon; Rajesh Chowdhary; Jun S Liu; Jinfeng Zhang
Journal:  Bioinformatics       Date:  2012-01-11       Impact factor: 6.937

9.  Collagen Gly missense mutations: Effect of residue identity on collagen structure and integrin binding.

Authors:  Yimin Qiu; Arya Mekkat; Hongtao Yu; Sezin Yigit; Samir Hamaia; Richard W Farndale; David L Kaplan; Yu-Shan Lin; Barbara Brodsky
Journal:  J Struct Biol       Date:  2018-05-11       Impact factor: 2.867

10.  Alpha-linolenic acid and linoleic acid differentially regulate the skeletal muscle secretome of obese Zucker rats.

Authors:  Alex Rajna; Heather Gibling; Ousseynou Sarr; Sarthak Matravadia; Graham P Holloway; David M Mutch
Journal:  Physiol Genomics       Date:  2018-05-04       Impact factor: 3.107

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