Transcriptome visualization and data availability at the Saccharomyces Genome Database.
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 2020
08 01 2020
Historique:
accepted:
07
10
2019
received:
13
09
2019
pubmed:
16
10
2019
medline:
28
5
2020
entrez:
16
10
2019
Statut:
ppublish
Résumé
The Saccharomyces Genome Database (SGD; www.yeastgenome.org) maintains the official annotation of all genes in the Saccharomyces cerevisiae reference genome and aims to elucidate the function of these genes and their products by integrating manually curated experimental data. Technological advances have allowed researchers to profile RNA expression and identify transcripts at high resolution. These data can be configured in web-based genome browser applications for display to the general public. Accordingly, SGD has incorporated published transcript isoform data in our instance of JBrowse, a genome visualization platform. This resource will help clarify S. cerevisiae biological processes by furthering studies of transcriptional regulation, untranslated regions, genome engineering, and expression quantification in S. cerevisiae.
Identifiants
pubmed: 31612944
pii: 5587629
doi: 10.1093/nar/gkz892
pmc: PMC7061941
doi:
Substances chimiques
Protein Isoforms
0
Saccharomyces cerevisiae Proteins
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
D743-D748Subventions
Organisme : NHGRI NIH HHS
ID : U41 HG001315
Pays : United States
Organisme : NHGRI NIH HHS
ID : U41 HG002273
Pays : United States
Organisme : NHGRI NIH HHS
ID : U41 HG002223
Pays : United States
Informations de copyright
© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.
Références
Proc Natl Acad Sci U S A. 2011 Jan 18;108(3):1058-63
pubmed: 21149693
Database (Oxford). 2019 Jan 1;2019:
pubmed: 31032841
Nucleic Acids Res. 2019 Jan 8;47(D1):D711-D715
pubmed: 30357387
Biochem Soc Trans. 2014 Aug;42(4):1256-60
pubmed: 25110034
PLoS Biol. 2017 Dec 14;15(12):e2004050
pubmed: 29240790
Science. 2008 Jun 6;320(5881):1344-9
pubmed: 18451266
Mol Syst Biol. 2011 Jan 4;7:458
pubmed: 21206491
Comput Struct Biotechnol J. 2019 May 07;17:628-637
pubmed: 31193391
Nucleic Acids Res. 2019 Jan 8;47(D1):D330-D338
pubmed: 30395331
Nat Protoc. 2014 Jul;9(7):1740-59
pubmed: 24967623
Nat Microbiol. 2019 Apr;4(4):683-692
pubmed: 30718850
Methods Mol Biol. 2014;1205:45-78
pubmed: 25213239
Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17846-51
pubmed: 17101987
Nucleic Acids Res. 2005 May 19;33(9):2838-51
pubmed: 15905473
Nature. 2009 Feb 19;457(7232):1033-7
pubmed: 19169243
Mol Genet Genomics. 2015 Feb;290(1):217-24
pubmed: 25213602
Nucleic Acids Res. 2018 Jan 4;46(D1):D823-D830
pubmed: 28977460
Nature. 2009 Feb 19;457(7232):1038-42
pubmed: 19169244
Science. 2009 Apr 10;324(5924):218-23
pubmed: 19213877
Cell. 2010 Dec 10;143(6):1018-29
pubmed: 21145465
Nucleic Acids Res. 2012 Jan;40(Database issue):D700-5
pubmed: 22110037
Nucleic Acids Res. 2013 Jan;41(Database issue):D991-5
pubmed: 23193258
Genome Biol. 2010;11(8):R87
pubmed: 20796282
Nature. 2013 May 2;497(7447):127-31
pubmed: 23615609
Genome Biol. 2016 Apr 12;17:66
pubmed: 27072794
Proc Natl Acad Sci U S A. 2009 Mar 3;106(9):3264-9
pubmed: 19208812
G3 (Bethesda). 2014 Mar 20;4(3):389-98
pubmed: 24374639
Nature. 2011 Jun 22;475(7354):114-7
pubmed: 21697827