Your browser doesn't support javascript.
GENCODE 2021.
Frankish, Adam; Diekhans, Mark; Jungreis, Irwin; Lagarde, Julien; Loveland, Jane E; Mudge, Jonathan M; Sisu, Cristina; Wright, James C; Armstrong, Joel; Barnes, If; Berry, Andrew; Bignell, Alexandra; Boix, Carles; Carbonell Sala, Silvia; Cunningham, Fiona; Di Domenico, Tomás; Donaldson, Sarah; Fiddes, Ian T; García Girón, Carlos; Gonzalez, Jose Manuel; Grego, Tiago; Hardy, Matthew; Hourlier, Thibaut; Howe, Kevin L; Hunt, Toby; Izuogu, Osagie G; Johnson, Rory; Martin, Fergal J; Martínez, Laura; Mohanan, Shamika; Muir, Paul; Navarro, Fabio C P; Parker, Anne; Pei, Baikang; Pozo, Fernando; Riera, Ferriol Calvet; Ruffier, Magali; Schmitt, Bianca M; Stapleton, Eloise; Suner, Marie-Marthe; Sycheva, Irina; Uszczynska-Ratajczak, Barbara; Wolf, Maxim Y; Xu, Jinuri; Yang, Yucheng T; Yates, Andrew; Zerbino, Daniel; Zhang, Yan; Choudhary, Jyoti S; Gerstein, Mark.
  • Frankish A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Diekhans M; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA 95064, USA.
  • Jungreis I; MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar St, Cambridge, MA 02139, USA.
  • Lagarde J; Broad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA.
  • Loveland JE; Centre for Genomic Regulation (CRG), The Barcelona Institute for Science and Technology, Dr. Aiguader 88, Barcelona, E-08003 Catalonia, Spain.
  • Mudge JM; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Sisu C; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Wright JC; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA.
  • Armstrong J; Department of Bioscience, Brunel University London, Uxbridge UB8 3PH, UK.
  • Barnes I; Functional Proteomics, Division of Cancer Biology, Institute of Cancer Research, 237 Fulham Road, London SW3 6JB, UK.
  • Berry A; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA 95064, USA.
  • Bignell A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Boix C; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Carbonell Sala S; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Cunningham F; MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar St, Cambridge, MA 02139, USA.
  • Di Domenico T; Broad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA.
  • Donaldson S; Computational and Systems Biology Program, Massachusetts Institute of Technology, Cambridge, MA, USA.
  • Fiddes IT; Centre for Genomic Regulation (CRG), The Barcelona Institute for Science and Technology, Dr. Aiguader 88, Barcelona, E-08003 Catalonia, Spain.
  • García Girón C; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Gonzalez JM; Bioinformatics Unit, Spanish National Cancer Research Centre (CNIO), Madrid, Spain.
  • Grego T; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Hardy M; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA 95064, USA.
  • Hourlier T; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Howe KL; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Hunt T; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Izuogu OG; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Johnson R; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Martin FJ; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Martínez L; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Mohanan S; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Muir P; Department of Medical Oncology, Inselspital, University Hospital, University of Bern, Bern, Switzerland.
  • Navarro FCP; Department of Biomedical Research (DBMR), University of Bern, Bern, Switzerland.
  • Parker A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Pei B; Bioinformatics Unit, Spanish National Cancer Research Centre (CNIO), Madrid, Spain.
  • Pozo F; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Riera FC; Department of Molecular, Cellular & Developmental Biology, Yale University, New Haven, CT 06520, USA.
  • Ruffier M; Systems Biology Institute, Yale University, West Haven, CT 06516, USA.
  • Schmitt BM; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA.
  • Stapleton E; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Suner MM; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA.
  • Sycheva I; Bioinformatics Unit, Spanish National Cancer Research Centre (CNIO), Madrid, Spain.
  • Uszczynska-Ratajczak B; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Wolf MY; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Xu J; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Yang YT; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Yates A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Zerbino D; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
  • Zhang Y; Centre of New Technologies, University of Warsaw, Warsaw, Poland.
  • Choudhary JS; Department of Biomedical Informatics at Harvard Medical School, 10 Shattuck Street, Suite 514, Boston, MA 02115, USA.
  • Gerstein M; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA.
Nucleic Acids Res ; 49(D1): D916-D923, 2021 01 08.
Article in English | MEDLINE | ID: covidwho-1387963
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.
Subject(s)
Fulltext
Print
XML
PubMed Links
Search on Google

Full text: Available Collection: International databases Database: MEDLINE Main subject: Computational Biology / Genomics / Databases, Genetic / Molecular Sequence Annotation / SARS-CoV-2 / COVID-19 Type of study: Observational study / Prognostic study Limits: Animals / Humans Language: English Journal: Nucleic Acids Res Year: 2021 Document Type: Article Affiliation country: NAR

Similar

MEDLINE
LILACS
LIS
Fulltext
Print
XML
PubMed Links
Search on Google

Full text: Available Collection: International databases Database: MEDLINE Main subject: Computational Biology / Genomics / Databases, Genetic / Molecular Sequence Annotation / SARS-CoV-2 / COVID-19 Type of study: Observational study / Prognostic study Limits: Animals / Humans Language: English Journal: Nucleic Acids Res Year: 2021 Document Type: Article Affiliation country: NAR