GENCODE 2021.
Journal
Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011
Informations de publication
Date de publication:
08 01 2021
08 01 2021
Historique:
accepted:
24
10
2020
revised:
21
10
2020
received:
21
09
2020
pubmed:
4
12
2020
medline:
26
1
2021
entrez:
3
12
2020
Statut:
ppublish
Résumé
The GENCODE project annotates human and mouse genes and transcripts supported by experimental data with high accuracy, providing a foundational resource that supports genome biology and clinical genomics. GENCODE annotation processes make use of primary data and bioinformatic tools and analysis generated both within the consortium and externally to support the creation of transcript structures and the determination of their function. Here, we present improvements to our annotation infrastructure, bioinformatics tools, and analysis, and the advances they support in the annotation of the human and mouse genomes including: the completion of first pass manual annotation for the mouse reference genome; targeted improvements to the annotation of genes associated with SARS-CoV-2 infection; collaborative projects to achieve convergence across reference annotation databases for the annotation of human and mouse protein-coding genes; and the first GENCODE manually supervised automated annotation of lncRNAs. Our annotation is accessible via Ensembl, the UCSC Genome Browser and https://www.gencodegenes.org.
Identifiants
pubmed: 33270111
pii: 6018430
doi: 10.1093/nar/gkaa1087
pmc: PMC7778937
doi:
Substances chimiques
RNA, Long Noncoding
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
D916-D923Subventions
Organisme : NIGMS NIH HHS
ID : T32 GM087237
Pays : United States
Organisme : NHGRI NIH HHS
ID : U41 HG007234
Pays : United States
Organisme : Wellcome Trust
ID : WT200990/Z/16/Z
Pays : United Kingdom
Organisme : Wellcome Trust
ID : WT108749/Z/15/Z
Pays : United Kingdom
Informations de copyright
© The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research.
Références
Curr Opin Virol. 2011 Dec;1(6):519-25
pubmed: 22328912
Genome Biol. 2006;7 Suppl 1:S4.1-9
pubmed: 16925838
Bioinformatics. 2014 Apr 1;30(7):1003-5
pubmed: 24227676
Nucleic Acids Res. 2018 Jan 4;46(D1):D213-D217
pubmed: 29069475
Bioinformatics. 2011 Jul 1;27(13):i275-82
pubmed: 21685081
Nat Commun. 2020 Jul 29;11(1):3695
pubmed: 32728065
Nucleic Acids Res. 2019 Jan 8;47(D1):D506-D515
pubmed: 30395287
Genome Res. 2012 Sep;22(9):1698-710
pubmed: 22955982
NPJ Genom Med. 2019 Dec 2;4:31
pubmed: 31814998
Nat Genet. 2018 Nov;50(11):1574-1583
pubmed: 30275530
Nature. 2017 Oct 18;550(7677):451-453
pubmed: 29072289
Nature. 2020 Jul;583(7816):459-468
pubmed: 32353859
Genomics. 1996 Nov 1;37(3):327-36
pubmed: 8938445
BMC Genomics. 2010 Oct 05;11:538
pubmed: 20923551
Nucleic Acids Res. 2020 Jan 8;48(D1):D682-D688
pubmed: 31691826
Cell Discov. 2020 Mar 16;6:14
pubmed: 32194980
Nucleic Acids Res. 2018 Jan 4;46(D1):D308-D314
pubmed: 29140524
J Biol Chem. 2018 Mar 23;293(12):4434-4444
pubmed: 29386352
Nucleic Acids Res. 2019 Jan 8;47(D1):D442-D450
pubmed: 30395289
Cell. 2019 Jun 27;178(1):242-260.e29
pubmed: 31155234
Genome Res. 2002 Jun;12(6):996-1006
pubmed: 12045153
BMC Genomics. 2020 Mar 3;21(1):196
pubmed: 32126975
Genome Res. 2012 Sep;22(9):1760-74
pubmed: 22955987
Genome Biol. 2018 Nov 28;19(1):208
pubmed: 30486838
Nat Genet. 2017 Dec;49(12):1731-1740
pubmed: 29106417
Nature. 2020 Nov;587(7833):246-251
pubmed: 33177663
Database (Oxford). 2016 Jun 23;2016:
pubmed: 27337980
Genome Res. 2019 Dec;29(12):2073-2087
pubmed: 31537640
Mol Biol Evol. 2016 Dec;33(12):3108-3132
pubmed: 27604222
BMC Genet. 2020 Mar 6;21(1):25
pubmed: 32138667
Nat Genet. 2015 Mar;47(3):199-208
pubmed: 25599403
Nature. 2017 Mar 9;543(7644):199-204
pubmed: 28241135
Nucleic Acids Res. 2016 Jan 4;44(D1):D733-45
pubmed: 26553804