GENCODE 2021

Adam Frankish(European Bioinformatics Institute), Mark Diekhans(University of California, Santa Cruz), Irwin Jungreis(Broad Institute), Julien Lagarde(Barcelona Institute of Science and Technology), Jane Loveland(European Bioinformatics Institute), Jonathan M. Mudge(European Bioinformatics Institute), Cristina Sisu(Yale University), James C. Wright(Institute of Cancer Research), Joel Armstrong(University of California, Santa Cruz), If Barnes(European Bioinformatics Institute), Andrew Berry(European Bioinformatics Institute), Alexandra Bignell(European Bioinformatics Institute), Carles A. Boix(Broad Institute), Sílvia Carbonell Sala(Barcelona Institute of Science and Technology), Fiona Cunningham(European Bioinformatics Institute), Tomás Di Domenico(Spanish National Cancer Research Centre), Sarah Donaldson(European Bioinformatics Institute), Ian T. Fiddes(University of California, Santa Cruz), Carlos García Girón(European Bioinformatics Institute), José M. González(European Bioinformatics Institute), Tiago Grego(European Bioinformatics Institute), Matthew P. Hardy(European Bioinformatics Institute), Thibaut Hourlier(European Bioinformatics Institute), Kevin Howe(European Bioinformatics Institute), Toby Hunt(European Bioinformatics Institute), Osagie Izuogu(European Bioinformatics Institute), Rory Johnson(University of Bern), Fergal J. Martin(European Bioinformatics Institute), Laura Martínez Gómez(Spanish National Cancer Research Centre), Shamika Mohanan(European Bioinformatics Institute), Paul Muir(Yale University), Fábio C. P. Navarro(Yale University), Anne Parker(European Bioinformatics Institute), Baikang Pei(Yale University), Fernando Campo del Pozo(Spanish National Cancer Research Centre), Ferriol Calvet(European Bioinformatics Institute), Magali Ruffier(European Bioinformatics Institute), Bianca M. Schmitt(European Bioinformatics Institute), Eloise Stapleton(European Bioinformatics Institute), Marie‐Marthe Suner(European Bioinformatics Institute), Irina Sycheva(European Bioinformatics Institute), Barbara Uszczyńska-Ratajczak(University of Warsaw), Maxim Y. Wolf(Harvard University), Jinrui Xu(Yale University), Yucheng Yang(Whitney Museum of American Art), Andrew Yates(European Bioinformatics Institute), Daniel R. Zerbino(European Bioinformatics Institute), Yan Zhang(Yale University), Jyoti S. Choudhary(Institute of Cancer Research), Mark Gerstein(Whitney Museum of American Art), Roderic Guigó(Universitat Pompeu Fabra), Tim Hubbard(Guy's Hospital), Manolis Kellis(Broad Institute), Benedict Paten(University of California, Santa Cruz), Michael L. Tress(Spanish National Cancer Research Centre), Paul Flicek(European Bioinformatics Institute)
Nucleic Acids Research
October 25, 2020
10.1093/nar/gkaa1087
Cited by 1,455Open Access
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Abstract

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.

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