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Nucleic Acids Research 2005 33(Database Issue):D34-D38; doi:10.1093/nar/gki063
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Nucleic Acids Research, 2005, Vol. 33, Database issue D34-D38
© 2005, the authors
Nucleic Acids Research, Vol. 33, Database issue © Oxford University Press 2005; all rights reserved

GenBank

Dennis A. Benson, Ilene Karsch-Mizrachi, David J. Lipman, James Ostell and David L. Wheeler*

Department of Health and Human Services, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA

* To whom correspondence should be addressed. Tel: +1 301 435 5950; Fax: +1 301 480 9241; Email: wheeler{at}ncbi.nlm.nih.gov

Received September 15, 2004; Revised and Accepted October 5, 2004

GenBank® is a comprehensive database that contains publicly available DNA sequences for more than 165 000 named organisms, obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects. Most submissions are made using the web-based BankIt or standalone 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 to 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 Homepage at http://www.ncbi.nlm.nih.gov.


The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use permissions, please contact journals.permissions{at}oupjournals.org.


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Nucleic Acids Res., January 1, 2006; 34(suppl_1): D213 - D217.
[Abstract] [Full Text] [PDF]


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U. Pieper, N. Eswar, F. P. Davis, H. Braberg, M. S. Madhusudhan, A. Rossi, M. Marti-Renom, R. Karchin, B. M. Webb, D. Eramian, et al.
MODBASE: a database of annotated comparative protein structure models and associated resources
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D291 - D295.
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Gene Ontology Consortium
The Gene Ontology (GO) project in 2006
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D322 - D326.
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F. Chen, A. J. Mackey, C. J. Stoeckert Jr, and D. S. Roos
OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D363 - D368.
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T. Lombardot, R. Kottmann, H. Pfeffer, M. Richter, H. Teeling, C. Quast, and F. O. Glockner
Megx.net--database resources for marine ecological genomics
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D390 - D393.
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J. Yang, L. Chen, J. Yu, L. Sun, and Q. Jin
ShiBASE: an integrated database for comparative genomics of Shigella
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D398 - D401.
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K. L. Schneider, K. S. Pollard, R. Baertsch, A. Pohl, and T. M. Lowe
The UCSC Archaeal Genome Browser
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D407 - D410.
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A. Ruepp, O. N. Doudieu, J. van den Oever, B. Brauner, I. Dunger-Kaltenbach, G. Fobo, G. Frishman, C. Montrone, C. Skornia, S. Wanka, et al.
The Mouse Functional Genome Database (MfunGD): functional annotation of proteins in the light of their cellular context
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D568 - D571.
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A. S. Hinrichs, D. Karolchik, R. Baertsch, G. P. Barber, G. Bejerano, H. Clawson, M. Diekhans, T. S. Furey, R. A. Harte, F. Hsu, et al.
The UCSC Genome Browser Database: update 2006
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D590 - D598.
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A. S. Nord, P. J. Chang, B. R. Conklin, A. V. Cox, C. A. Harper, G. G. Hicks, C. C. Huang, S. J. Johns, M. Kawamoto, S. Liu, et al.
The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse
Nucleic Acids Res., January 1, 2006; 34(suppl_1): D642 - D648.
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Appl. Environ. Microbiol.Home page
P. Sangwan, S. Kovac, K. E. R. Davis, M. Sait, and P. H. Janssen
Detection and Cultivation of Soil Verrucomicrobia
Appl. Envir. Microbiol., December 1, 2005; 71(12): 8402 - 8410.
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Mol. Biol. CellHome page
J. Muller, Y. Oma, L. Vallar, E. Friederich, O. Poch, and B. Winsor
Sequence and Comparative Genomic Analysis of Actin-related Proteins
Mol. Biol. Cell, December 1, 2005; 16(12): 5736 - 5748.
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P. D. Karp, C. A. Ouzounis, C. Moore-Kochlacs, L. Goldovsky, P. Kaipa, D. Ahren, S. Tsoka, N. Darzentas, V. Kunin, and N. Lopez-Bigas
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes
Nucleic Acids Res., October 24, 2005; 33(19): 6083 - 6089.
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G. Cheng, B. Qian, R. Samudrala, and D. Baker
Improvement in protein functional site prediction by distinguishing structural and functional constraints on protein family evolution using computational design
Nucleic Acids Res., October 13, 2005; 33(18): 5861 - 5867.
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BioinformaticsHome page
L. Goldovsky, P. Janssen, D. Ahren, B. Audit, I. Cases, N. Darzentas, A. J. Enright, N. Lopez-Bigas, J. M. Peregrin-Alvarez, M. Smith, et al.
CoGenT++: an extensive and extensible data environment for computational genomics
Bioinformatics, October 1, 2005; 21(19): 3806 - 3810.
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Plant Physiol.Home page
Q. Dong, C. J. Lawrence, S. D. Schlueter, M. D. Wilkerson, S. Kurtz, C. Lushbough, and V. Brendel
Comparative Plant Genomics Resources at PlantGDB
Plant Physiology, October 1, 2005; 139(2): 610 - 618.
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J. Biol. Chem.Home page
D. E. Kunzler, S. Sasso, M. Gamper, D. Hilvert, and P. Kast
Mechanistic Insights into the Isochorismate Pyruvate Lyase Activity of the Catalytically Promiscuous PchB from Combinatorial Mutagenesis and Selection
J. Biol. Chem., September 23, 2005; 280(38): 32827 - 32834.
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Proc. Natl. Acad. Sci. USAHome page
R. A. George, R. V. Spriggs, G. J. Bartlett, A. Gutteridge, M. W. MacArthur, C. T. Porter, B. Al-Lazikani, J. M. Thornton, and M. B. Swindells
Inaugural Article: Effective function annotation through catalytic residue conservation
PNAS, August 30, 2005; 102(35): 12299 - 12304.
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J. D. Thompson, S. R. Holbrook, K. Katoh, P. Koehl, D. Moras, E. Westhof, and O. Poch
MAO: a Multiple Alignment Ontology for nucleic acid and protein sequences
Nucleic Acids Res., July 25, 2005; 33(13): 4164 - 4171.
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J. H. Havgaard, R. B. Lyngso, and J. Gorodkin
The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search
Nucleic Acids Res., July 1, 2005; 33(suppl_2): W650 - W653.
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P. Khatri, S. Sellamuthu, P. Malhotra, K. Amin, A. Done, and S. Draghici
Recent additions and improvements to the Onto-Tools
Nucleic Acids Res., July 1, 2005; 33(suppl_2): W762 - W765.
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Plant Physiol.Home page
D. L. Wheeler, B. Smith-White, V. Chetvernin, S. Resenchuk, S. M. Dombrowski, S. W. Pechous, T. Tatusova, and J. Ostell
Plant Genome Resources at the National Center for Biotechnology Information
Plant Physiology, July 1, 2005; 138(3): 1280 - 1288.
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Genome ResHome page
W.J. Kent, F. Hsu, D. Karolchik, R. M. Kuhn, H. Clawson, H. Trumbower, and D. Haussler
Exploring relationships and mining data with the UCSC Gene Sorter
Genome Res., May 1, 2005; 15(5): 737 - 741.
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Nucleic Acids ResHome page
D. L. Wheeler, T. Barrett, D. A. Benson, S. H. Bryant, K. Canese, D. M. Church, M. DiCuccio, R. Edgar, S. Federhen, W. Helmberg, et al.
Database resources of the National Center for Biotechnology Information
Nucleic Acids Res., January 1, 2005; 33(suppl_1): D39 - D45.
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C. Brooksbank, G. Cameron, and J. Thornton
The European Bioinformatics Institute's data resources: towards systems biology
Nucleic Acids Res., January 1, 2005; 33(suppl_1): D46 - D53.
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