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PMID: 25361968 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Genenames.org: the HGNC resources in 2015.

Nucleic acids research ·Vol. 43 ·No. Database issue ·2015-01-00 ·Pages D1079-85

Gray KA, Yates B, Seal RL, Wright MW, Bruford EA

Abstract

The HUGO Gene Nomenclature Committee (HGNC) based at the European Bioinformatics Institute (EMBL-EBI) assigns unique symbols and names to human genes. To date the HGNC have assigned over 39,000 gene names and, representing an increase of over 5000 entries in the past two years. As well as increasing the size of our database, we have continued redesigning our website http://www.genenames.org and have modified, updated and improved many aspects of the site including a faster and more powerful search, a vastly improved HCOP tool and a REST service to increase the number of ways users can retrieve our data. This article provides an overview of our current online data and resources, and highlights the changes we have made in recent years.

MeSH Terms
Databases, Genetic Genes Genome, Human Humans Internet Terminology as Topic
Authors & Affiliations
5 authors, click to expand affiliations / ORCID
Gray Kristian A
HUGO Gene Nomenclature Committee, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
Yates Bethan
HUGO Gene Nomenclature Committee, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
Seal Ruth L
HUGO Gene Nomenclature Committee, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
Wright Mathew W
HUGO Gene Nomenclature Committee, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
Bruford Elspeth A
HUGO Gene Nomenclature Committee, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK elspeth@ebi.ac.uk.
References (41)
41 references, click to expand
  1. Genew: the Human Gene Nomenclature Database, 2004 updates.
    Nucleic Acids Res. 2004 Jan 1;32(Database issue):D255-7 PMID: 14681406
  2. PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D897-902 PMID: 24275491
  3. OMA 2011: orthology inference among 1000 complete genomes.
    Nucleic Acids Res. 2011 Jan;39(Database issue):D289-94 PMID: 21113020
  4. The Vertebrate Genome Annotation browser 10 years on.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D771-9 PMID: 24316575
  5. Entrez Gene: gene-centered information at NCBI.
    Nucleic Acids Res. 2011 Jan;39(Database issue):D52-7 PMID: 21115458
  6. Vive la différence: naming structural variants in the human reference genome.
    Hum Genomics. 2013 May 01;7:12 PMID: 23634723
  7. NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy.
    Nucleic Acids Res. 2012 Jan;40(Database issue):D130-5 PMID: 22121212
  8. PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees.
    Nucleic Acids Res. 2013 Jan;41(Database issue):D377-86 PMID: 23193289
  9. DECIPHER: database for the interpretation of phenotype-linked plausibly pathogenic sequence and copy-number variation.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D993-D1000 PMID: 24150940
  10. A short guide to long non-coding RNA gene nomenclature.
    Hum Genomics. 2014 Apr 09;8:7 PMID: 24716852
  11. Xenbase: expansion and updates of the Xenopus model organism database.
    Nucleic Acids Res. 2013 Jan;41(Database issue):D865-70 PMID: 23125366
  12. OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups.
    Nucleic Acids Res. 2006 Jan 1;34(Database issue):D363-8 PMID: 16381887
  13. The Mouse Genome Database: integration of and access to knowledge about the laboratory mouse.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D810-7 PMID: 24285300
  14. InterPro in 2011: new developments in the family and domain prediction database.
    Nucleic Acids Res. 2012 Jan;40(Database issue):D306-12 PMID: 22096229
  15. ZFIN: enhancements and updates to the Zebrafish Model Organism Database.
    Nucleic Acids Res. 2011 Jan;39(Database issue):D822-9 PMID: 21036866
  16. BioGPS and MyGene.info: organizing online, gene-centric information.
    Nucleic Acids Res. 2013 Jan;41(Database issue):D561-5 PMID: 23175613
  17. GeneCards Version 3: the human gene integrator.
    Database (Oxford). 2010 Aug 05;2010:baq020 PMID: 20689021
  18. InParanoid 7: new algorithms and tools for eukaryotic orthology analysis.
    Nucleic Acids Res. 2010 Jan;38(Database issue):D196-203 PMID: 19892828
  19. OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs.
    Nucleic Acids Res. 2013 Jan;41(Database issue):D358-65 PMID: 23180791
  20. Activities at the Universal Protein Resource (UniProt).
    Nucleic Acids Res. 2014 Jan;42(Database issue):D191-8 PMID: 24253303
  21. eHive: an artificial intelligence workflow system for genomic analysis.
    BMC Bioinformatics. 2010 May 11;11:240 PMID: 20459813
  22. GeneTests: an online genetic information resource for health care providers.
    J Med Libr Assoc. 2006 Jul;94(3):343-8 PMID: 16888670
  23. HCOP: a searchable database of human orthology predictions.
    Brief Bioinform. 2007 Jan;8(1):2-5 PMID: 16951416
  24. The Rat Genome Database 2013--data, tools and users.
    Brief Bioinform. 2013 Jul;14(4):520-6 PMID: 23434633
  25. Ensembl 2014.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D749-55 PMID: 24316576
  26. DDBJ progress report: a new submission system for leading to a correct annotation.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D44-9 PMID: 24194602
  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. Current status and new features of the Consensus Coding Sequence database.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D865-72 PMID: 24217909
  29. GenBank.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D32-7 PMID: 24217914
  30. Modernizing reference genome assemblies.
    PLoS Biol. 2011 Jul;9(7):e1001091 PMID: 21750661
  31. eggNOG v4.0: nested orthology inference across 3686 organisms.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D231-9 PMID: 24297252
  32. GENCODE: the reference human genome annotation for The ENCODE Project.
    Genome Res. 2012 Sep;22(9):1760-74 PMID: 22955987
  33. TreeFam v9: a new website, more species and orthology-on-the-fly.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D922-5 PMID: 24194607
  34. Multiple evidence strands suggest that there may be as few as 19,000 human protein-coding genes.
    Hum Mol Genet. 2014 Nov 15;23(22):5866-78 PMID: 24939910
  35. Assembly information services in the European Nucleotide Archive.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D38-43 PMID: 24214989
  36. HCOP: the HGNC comparison of orthology predictions search tool.
    Mamm Genome. 2005 Nov;16(11):827-8 PMID: 16284797
  37. Developing the blueprint for a genetic testing registry.
    Public Health Genomics. 2010;13(2):95-105 PMID: 19556748
  38. Locus Reference Genomic: reference sequences for the reporting of clinically relevant sequence variants.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D873-8 PMID: 24285302
  39. ClinVar: public archive of relationships among sequence variation and human phenotype.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D980-5 PMID: 24234437
  40. Genenames.org: the HGNC resources in 2013.
    Nucleic Acids Res. 2013 Jan;41(Database issue):D545-52 PMID: 23161694
  41. The UCSC Genome Browser database: 2014 update.
    Nucleic Acids Res. 2014 Jan;42(Database issue):D764-70 PMID: 24270787
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gku1071
Email
elspeth@ebi.ac.uk
Published
2015-01-00
Epub
2014-00-31
Pages
D1079-85
Language
English
Region
England
NLM ID
0411011
PMCID
PMC4383909
Subset
IM
Grants
NHGRI NIH HHS · U41 HG003345 · United States
NHGRI NIH HHS · P41 HG03345 · United States
Wellcome Trust · 099129/Z/12/Z · United Kingdom
External Links
PubMed source DOI: 10.1093/nar/gku1071 PMC Full Text View journal details
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