Literature DB >> 12519940

GenBank.

Dennis A Benson1, Ilene Karsch-Mizrachi, David J Lipman, James Ostell, David L Wheeler.   

Abstract

GenBank (R) is a comprehensive sequence database that contains publicly available DNA sequences for more than 119 000 different organisms, obtained primarily through the submission of sequence data from individual laboratories and batch submissions from large-scale sequencing projects. Most submissions are made using the BankIt (web) or Sequin programs and accession numbers are assigned by GenBank staff upon receipt. Daily data exchange with the EMBL Data Library in the UK and the DNA Data Bank of Japan helps ensure worldwide coverage. GenBank is accessible through NCBI's retrieval system, Entrez, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete bimonthly releases and daily updates of the GenBank database are available by FTP. To access GenBank and its related retrieval and analysis services, go to the NCBI home page at: http://www.ncbi.nlm.nih.gov.

Mesh:

Year:  2003        PMID: 12519940      PMCID: PMC165504          DOI: 10.1093/nar/gkg057

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


  13 in total

1.  MMDB: Entrez's 3D-structure database.

Authors:  Yanli Wang; John B Anderson; Jie Chen; Lewis Y Geer; Siqian He; David I Hurwitz; Cynthia A Liebert; Thomas Madej; Gabriele H Marchler; Aron Marchler-Bauer; Anna R Panchenko; Benjamin A Shoemaker; James S Song; Paul A Thiessen; Roxanne A Yamashita; Stephen H Bryant
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

2.  GenBank.

Authors:  Dennis A Benson; Ilene Karsch-Mizrachi; David J Lipman; James Ostell; Barbara A Rapp; David L Wheeler
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

3.  The EMBL Nucleotide Sequence Database.

Authors:  Guenter Stoesser; Wendy Baker; Alexandra van den Broek; Evelyn Camon; Maria Garcia-Pastor; Carola Kanz; Tamara Kulikova; Rasko Leinonen; Quan Lin; Vincent Lombard; Rodrigo Lopez; Nicole Redaschi; Peter Stoehr; Mary Ann Tuli; Katerina Tzouvara; Robert Vaughan
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

4.  DNA Data Bank of Japan (DDBJ) for genome scale research in life science.

Authors:  Y Tateno; T Imanishi; S Miyazaki; K Fukami-Kobayashi; N Saitou; H Sugawara; T Gojobori
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

5.  Protein sequence similarity searches using patterns as seeds.

Authors:  Z Zhang; A A Schäffer; W Miller; T L Madden; D J Lipman; E V Koonin; S F Altschul
Journal:  Nucleic Acids Res       Date:  1998-09-01       Impact factor: 16.971

Review 6.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

Authors:  S F Altschul; T L Madden; A A Schäffer; J Zhang; Z Zhang; W Miller; D J Lipman
Journal:  Nucleic Acids Res       Date:  1997-09-01       Impact factor: 16.971

7.  An STS-based map of the human genome.

Authors:  T J Hudson; L D Stein; S S Gerety; J Ma; A B Castle; J Silva; D K Slonim; R Baptista; L Kruglyak; S H Xu; X Hu; A M Colbert; C Rosenberg; M P Reeve-Daly; S Rozen; L Hui; X Wu; C Vestergaard; K M Wilson; J S Bae; S Maitra; S Ganiatsas; C A Evans; M M DeAngelis; K A Ingalls; R W Nahf; L T Horton; M O Anderson; A J Collymore; W Ye; V Kouyoumjian; I S Zemsteva; J Tam; R Devine; D F Courtney; M T Renaud; H Nguyen; T J O'Connor; C Fizames; S Fauré; G Gyapay; C Dib; J Morissette; J B Orlin; B W Birren; N Goodman; J Weissenbach; T L Hawkins; S Foote; D C Page; E S Lander
Journal:  Science       Date:  1995-12-22       Impact factor: 47.728

8.  Genomic sequence sampling: a strategy for high resolution sequence-based physical mapping of complex genomes.

Authors:  M W Smith; A L Holmsen; Y H Wei; M Peterson; G A Evans
Journal:  Nat Genet       Date:  1994-05       Impact factor: 38.330

9.  Functional annotation of a full-length mouse cDNA collection.

Authors:  J Kawai; A Shinagawa; K Shibata; M Yoshino; M Itoh; Y Ishii; T Arakawa; A Hara; Y Fukunishi; H Konno; J Adachi; S Fukuda; K Aizawa; M Izawa; K Nishi; H Kiyosawa; S Kondo; I Yamanaka; T Saito; Y Okazaki; T Gojobori; H Bono; T Kasukawa; R Saito; K Kadota; H Matsuda; M Ashburner; S Batalov; T Casavant; W Fleischmann; T Gaasterland; C Gissi; B King; H Kochiwa; P Kuehl; S Lewis; Y Matsuo; I Nikaido; G Pesole; J Quackenbush; L M Schriml; F Staubli; R Suzuki; M Tomita; L Wagner; T Washio; K Sakai; T Okido; M Furuno; H Aono; R Baldarelli; G Barsh; J Blake; D Boffelli; N Bojunga; P Carninci; M F de Bonaldo; M J Brownstein; C Bult; C Fletcher; M Fujita; M Gariboldi; S Gustincich; D Hill; M Hofmann; D A Hume; M Kamiya; N H Lee; P Lyons; L Marchionni; J Mashima; J Mazzarelli; P Mombaerts; P Nordone; B Ring; M Ringwald; I Rodriguez; N Sakamoto; H Sasaki; K Sato; C Schönbach; T Seya; Y Shibata; K F Storch; H Suzuki; K Toyo-oka; K H Wang; C Weitz; C Whittaker; L Wilming; A Wynshaw-Boris; K Yoshida; Y Hasegawa; H Kawaji; S Kohtsuki; Y Hayashizaki
Journal:  Nature       Date:  2001-02-08       Impact factor: 49.962

10.  Database resources of the National Center for Biotechnology.

Authors:  David L Wheeler; Deanna M Church; Scott Federhen; Alex E Lash; Thomas L Madden; Joan U Pontius; Gregory D Schuler; Lynn M Schriml; Edwin Sequeira; Tatiana A Tatusova; Lukas Wagner
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

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  117 in total

1.  Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins.

Authors:  Susan Jones; Hugh P Shanahan; Helen M Berman; Janet M Thornton
Journal:  Nucleic Acids Res       Date:  2003-12-15       Impact factor: 16.971

2.  Recognition of the 5' leader of pre-tRNA substrates by the active site of ribonuclease P.

Authors:  Nathan H Zahler; Eric L Christian; Michael E Harris
Journal:  RNA       Date:  2003-06       Impact factor: 4.942

3.  Whole proteome prokaryote phylogeny without sequence alignment: a K-string composition approach.

Authors:  Ji Qi; Bin Wang; Bai-Iin Hao
Journal:  J Mol Evol       Date:  2004-01       Impact factor: 2.395

4.  Phylogenetic analysis of Sec7-domain-containing Arf nucleotide exchangers.

Authors:  Randal Cox; Roberta J Mason-Gamer; Catherine L Jackson; Nava Segev
Journal:  Mol Biol Cell       Date:  2004-01-23       Impact factor: 4.138

5.  A unique set of 11,008 onion expressed sequence tags reveals expressed sequence and genomic differences between the monocot orders Asparagales and Poales.

Authors:  Joseph C Kuhl; Foo Cheung; Qiaoping Yuan; William Martin; Yayeh Zewdie; John McCallum; Andrew Catanach; Paul Rutherford; Kenneth C Sink; Maria Jenderek; James P Prince; Christopher D Town; Michael J Havey
Journal:  Plant Cell       Date:  2003-12-11       Impact factor: 11.277

6.  ANTIMIC: a database of antimicrobial sequences.

Authors:  M Brahmachary; S P T Krishnan; J L Y Koh; A M Khan; S H Seah; T W Tan; V Brusic; V B Bajic
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

7.  MitoProteome: mitochondrial protein sequence database and annotation system.

Authors:  Dawn Cotter; Purnima Guda; Eoin Fahy; Shankar Subramaniam
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

8.  The Mouse SAGE Site: database of public mouse SAGE libraries.

Authors:  Petr Divina; Jirí Forejt
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

9.  coliBASE: an online database for Escherichia coli, Shigella and Salmonella comparative genomics.

Authors:  Roy R Chaudhuri; Arshad M Khan; Mark J Pallen
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

10.  The mouse Gene Expression Database (GXD): updates and enhancements.

Authors:  David P Hill; Dale A Begley; Jacqueline H Finger; Terry F Hayamizu; Ingeborg J McCright; Constance M Smith; Jon S Beal; Lori E Corbani; Judith A Blake; Janan T Eppig; James A Kadin; Joel E Richardson; Martin Ringwald
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

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