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GENCODE 2021
Authors
J Armstrong
I Barnes
+54 more
A Berry
A Bignell
C Boix
S Carbonell Sala
JS Choudhary
F Cunningham
T Di Domenico
M Diekhans
S Donaldson
IT Fiddes
P Flicek
A Frankish
C García Girón
M Gerstein
JM Gonzalez
T Grego
R Guigó
M Hardy
T Hourlier
KL Howe
TJP Hubbard
T Hunt
OG Izuogu
R Johnson
I Jungreis
M Kellis
J Lagarde
JE Loveland
FJ Martin
L Martínez
S Mohanan
JM Mudge
P Muir
FCP Navarro
A Parker
B Paten
B Pei
F Pozo
FC Riera
M Ruffier
BM Schmitt
C Sisu
E Stapleton
MM Suner
I Sycheva
ML Tress
B Uszczynska-Ratajczak
MY Wolf
JC Wright
J Xu
YT Yang
A Yates
D Zerbino
Y Zhang
Publication date
1 January 2021
Publisher
'Oxford University Press (OUP)'
Doi
Cite
Abstract
© The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research. 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.National Human Genome Research Institute of the National Institutes of Health [U41HG007234]; the content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health; Wellcome Trust [WT108749/Z/15/Z, WT200990/Z/16/Z]; European Molecular Biology Laboratory; Swiss National Science Foundation through the National Center of Competence in Research ‘RNA & Disease’ (to R.J.); Medical Faculty of the University of Bern (to R.J). Funding for open access charge: National Institutes of Health
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