Home LiteratureArticle Details
PMID: 18045790 Published · ppublish English Journal Article Research Support, N.I.H., Intramural

Database resources of the National Center for Biotechnology Information.

Nucleic acids research ·Vol. 36 ·No. Database issue ·2008-01-00 ·Pages D13-21

Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, Dicuccio M, Edgar R, Federhen S, Feolo M, Geer LY, Helmberg W, Kapustin Y, Khovayko O, Landsman D, Lipman DJ, Madden TL, Maglott DR, Miller V, Ostell J, Pruitt KD, Schuler GD, Shumway M, Sequeira E, Sherry ST, Sirotkin K, Souvorov A, Starchenko G, Tatusov RL, Tatusova TA, Wagner L, Yaschenko E

Abstract

In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides analysis and retrieval resources for the data in GenBank and other biological data available through NCBI's web site. NCBI resources include Entrez, the Entrez Programming Utilities, My NCBI, PubMed, PubMed Central, Entrez Gene, the NCBI Taxonomy Browser, BLAST, BLAST Link, Electronic PCR, OrfFinder, Spidey, Splign, RefSeq, UniGene, HomoloGene, ProtEST, dbMHC, dbSNP, Cancer Chromosomes, Entrez Genome, Genome Project and related tools, the Trace, Assembly, and Short Read Archives, the Map Viewer, Model Maker, Evidence Viewer, Clusters of Orthologous Groups, Influenza Viral Resources, HIV-1/Human Protein Interaction Database, Gene Expression Omnibus, Entrez Probe, GENSAT, Database of Genotype and Phenotype, Online Mendelian Inheritance in Man, Online Mendelian Inheritance in Animals, the Molecular Modeling Database, the Conserved Domain Database, the Conserved Domain Architecture Retrieval Tool and the PubChem suite of small molecule databases. Augmenting the web applications are custom implementations of the BLAST program optimized to search specialized data sets. These resources can be accessed through the NCBI home page at www.ncbi.nlm.nih.gov.

MeSH Terms
Animals Databases, Genetic Databases, Nucleic Acid Gene Expression Genomics Genotype Humans Internet Models, Molecular National Library of Medicine (U.S.) Phenotype Proteomics Sequence Alignment United States
Authors & Affiliations
33 authors, click to expand affiliations / ORCID
Wheeler David L
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA.
Barrett Tanya
Benson Dennis A
Bryant Stephen H
Canese Kathi
Chetvernin Vyacheslav
Church Deanna M
Dicuccio Michael
Edgar Ron
Federhen Scott
Feolo Michael
Geer Lewis Y
Helmberg Wolfgang
Kapustin Yuri
Khovayko Oleg
Landsman David
Lipman David J
Madden Thomas L
Maglott Donna R
Miller Vadim
Ostell James
Pruitt Kim D
Schuler Gregory D
Shumway Martin
Sequeira Edwin
Sherry Steven T
Sirotkin Karl
Souvorov Alexandre
Starchenko Grigory
Tatusov Roman L
Tatusova Tatiana A
Wagner Lukas
Yaschenko Eugene
References (38)
38 references, click to expand
  1. The Zebrafish Information Network: the zebrafish model organism database.
    Nucleic Acids Res. 2006 Jan 1;34(Database issue):D581-5 PMID: 16381936
  2. A breakpoint map of recurrent chromosomal rearrangements in human neoplasia.
    Nat Genet. 1997 Apr;15 Spec No:417-74 PMID: 9140409
  3. The COG database: an updated version includes eukaryotes.
    BMC Bioinformatics. 2003 Sep 11;4:41 PMID: 12969510
  4. NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D61-5 PMID: 17130148
  5. Entrez: molecular biology database and retrieval system.
    Methods Enzymol. 1996;266:141-62 PMID: 8743683
  6. Cn3D: sequence and structure views for Entrez.
    Trends Biochem Sci. 2000 Jun;25(6):300-2 PMID: 10838572
  7. PatternHunter: faster and more sensitive homology search.
    Bioinformatics. 2002 Mar;18(3):440-5 PMID: 11934743
  8. Complete genomes in WWW Entrez: data representation and analysis.
    Bioinformatics. 1999 Jul-Aug;15(7-8):536-43 PMID: 10487861
  9. A general method applicable to the search for similarities in the amino acid sequence of two proteins.
    J Mol Biol. 1970 Mar;48(3):443-53 PMID: 5420325
  10. SMART 5: domains in the context of genomes and networks.
    Nucleic Acids Res. 2006 Jan 1;34(Database issue):D257-60 PMID: 16381859
  11. Genome-wide genotyping in Parkinson's disease and neurologically normal controls: first stage analysis and public release of data.
    Lancet Neurol. 2006 Nov;5(11):911-6 PMID: 17052657
  12. BLAST: improvements for better sequence analysis.
    Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W6-9 PMID: 16845079
  13. Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution.
    Nature. 2005 Oct 20;437(7062):1162-6 PMID: 16208317
  14. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
    Nucleic Acids Res. 1997 Sep 1;25(17):3389-402 PMID: 9254694
  15. MMDB: annotating protein sequences with Entrez's 3D-structure database.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D298-300 PMID: 17135201
  16. CDD: a conserved domain database for interactive domain family analysis.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D237-40 PMID: 17135202
  17. Pieces of the puzzle: expressed sequence tags and the catalog of human genes.
    J Mol Med (Berl). 1997 Oct;75(10):694-8 PMID: 9382993
  18. Basic local alignment search tool.
    J Mol Biol. 1990 Oct 5;215(3):403-10 PMID: 2231712
  19. New models of collaboration in genome-wide association studies: the Genetic Association Information Network.
    Nat Genet. 2007 Sep;39(9):1045-51 PMID: 17728769
  20. Expanded protein information at SGD: new pages and proteome browser.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D468-71 PMID: 17142221
  21. BLAST 2 Sequences, a new tool for comparing protein and nucleotide sequences.
    FEMS Microbiol Lett. 1999 May 15;174(2):247-50 PMID: 10339815
  22. dbSNP: the NCBI database of genetic variation.
    Nucleic Acids Res. 2001 Jan 1;29(1):308-11 PMID: 11125122
  23. Allelic genes of blood group antigens: a source of human mutations and cSNPs documented in the Blood Group Antigen Gene Mutation Database.
    Hum Mutat. 2004 Jan;23(1):8-16 PMID: 14695527
  24. MEDICAL SUBJECT HEADINGS IN MEDLARS.
    Bull Med Libr Assoc. 1964 Jan;52:164-70 PMID: 14119288
  25. GenBank.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D21-5 PMID: 17202161
  26. Data management and analysis for gene expression arrays.
    Nat Genet. 1998 Sep;20(1):19-23 PMID: 9731524
  27. Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders.
    Nucleic Acids Res. 2005 Jan 1;33(Database issue):D514-7 PMID: 15608251
  28. The Mouse Genome Database (MGD): updates and enhancements.
    Nucleic Acids Res. 2006 Jan 1;34(Database issue):D562-7 PMID: 16381933
  29. The Age-Related Eye Disease Study (AREDS): design implications. AREDS report no. 1.
    Control Clin Trials. 1999 Dec;20(6):573-600 PMID: 10588299
  30. Pfam: clans, web tools and services.
    Nucleic Acids Res. 2006 Jan 1;34(Database issue):D247-51 PMID: 16381856
  31. NCBI GEO: mining tens of millions of expression profiles--database and tools update.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D760-5 PMID: 17099226
  32. The sequencing-based typing tool of dbMHC: typing highly polymorphic gene sequences.
    Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W173-5 PMID: 15215374
  33. Entrez Gene: gene-centered information at NCBI.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D26-31 PMID: 17148475
  34. The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D301-3 PMID: 17142228
  35. A greedy algorithm for aligning DNA sequences.
    J Comput Biol. 2000 Feb-Apr;7(1-2):203-14 PMID: 10890397
  36. GenBank.
    Nucleic Acids Res. 2008 Jan;36(Database issue):D25-30 PMID: 18073190
  37. Open mass spectrometry search algorithm.
    J Proteome Res. 2004 Sep-Oct;3(5):958-64 PMID: 15473683
  38. FlyBase: genomes by the dozen.
    Nucleic Acids Res. 2007 Jan;35(Database issue):D486-91 PMID: 17099233
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
Published
2008-01-00
Epub
2007-00-27
Pages
D13-21
Language
English
Region
England
NLM ID
0411011
PMCID
PMC2238880
Subset
IM
Grants
Intramural NIH HHS · Z99 LM999999 · United States
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com