Jonathan M Mudge

Summary

Affiliation: Wellcome Trust Genome Campus
Country: UK

Publications

  1. pmc Creating reference gene annotation for the mouse C57BL6/J genome assembly
    Jonathan M Mudge
    Wellcome Trust Sanger Institute, Cambridge, UK
    Mamm Genome 26:366-78. 2015
  2. pmc The origins, evolution, and functional potential of alternative splicing in vertebrates
    Jonathan M Mudge
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Mol Biol Evol 28:2949-59. 2011
  3. pmc Dynamic instability of the major urinary protein gene family revealed by genomic and phenotypic comparisons between C57 and 129 strain mice
    Jonathan M Mudge
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB101SA, UK
    Genome Biol 9:R91. 2008
  4. pmc The importance of identifying alternative splicing in vertebrate genome annotation
    Adam Frankish
    Human and Vertebrate Analysis and Annotation Team, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Database (Oxford) 2012:bas014. 2012
  5. doi request reprint The state of play in higher eukaryote gene annotation
    Jonathan M Mudge
    Department of Computational Genomics, Wellcome Trust Sanger Institute, Hinxton CB10 1SA, UK
    Nat Rev Genet 17:758-772. 2016
  6. pmc Current status and new features of the Consensus Coding Sequence database
    Catherine M Farrell
    National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA, Center for Biomolecular Science and Engineering, University of California Santa Cruz UCSC, Santa Cruz, CA 95064, USA, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK and Howard Hughes Medical Institute, University of California Santa Cruz, Santa Cruz, CA 95064, USA
    Nucleic Acids Res 42:D865-72. 2014

Collaborators

  • Jennifer L Harrow
  • Robert Baertsch
  • Charles A Steward
  • Dmitri D Pervouchine
  • Roderic Guigo
  • Jane L Hurst
  • Thomas Derrien
  • Adam Frankish
  • Catherine M Farrell
  • Toby Hunt
  • Craig Wallin
  • Wendy Wu
  • Garth R Brown
  • Pamela Tamez
  • Stephen M J Searle
  • Mike P Kay
  • Daniel Barrell
  • Ruth Bennett
  • Bhanu Rajput
  • Kim D Pruitt
  • Kelly M McGarvey
  • Shashikant Pujar
  • Bronwen Aken
  • Rachel A Harte
  • Jeena Rajan
  • Tim Hubbard
  • Michael Murphy
  • Jane E Loveland
  • Mark Diekhans
  • Catherine Snow
  • Stephen J Trevanion
  • Nuala A O'Leary
  • Marie Marthe Suner
  • Andrei Shkeda
  • Janet Weber
  • Jose M Gonzalez
  • Lillian D Riddick
  • David Webb
  • Sanjida H Rangwala
  • Jennifer Hart
  • James G R Gilbert
  • Mark Thomas
  • David Haussler
  • Susan M Hiatt
  • James M Ostell
  • Laurens G Wilming

Detail Information

Publications6

  1. pmc Creating reference gene annotation for the mouse C57BL6/J genome assembly
    Jonathan M Mudge
    Wellcome Trust Sanger Institute, Cambridge, UK
    Mamm Genome 26:366-78. 2015
    ..Finally, we will outline how the C57BL6/J genebuild can be used to gain insights into the variant sites that distinguish different mouse strains and species. ..
  2. pmc The origins, evolution, and functional potential of alternative splicing in vertebrates
    Jonathan M Mudge
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Mol Biol Evol 28:2949-59. 2011
    ..Our data supports a model whereby the acquisition of functional AS has occurred throughout vertebrate evolution and is considered alongside amino acid change as a key mechanism in gene evolution...
  3. pmc Dynamic instability of the major urinary protein gene family revealed by genomic and phenotypic comparisons between C57 and 129 strain mice
    Jonathan M Mudge
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB101SA, UK
    Genome Biol 9:R91. 2008
    ..Whilst important information about MUP functionality has been gained in recent years, the gene cluster is poorly studied in terms of structure, genic polymorphism and evolution...
  4. pmc The importance of identifying alternative splicing in vertebrate genome annotation
    Adam Frankish
    Human and Vertebrate Analysis and Annotation Team, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Database (Oxford) 2012:bas014. 2012
    ..DATABASE URL: http://www.ensembl.org/index.html, http://vega.sanger.ac.uk/index.html...
  5. doi request reprint The state of play in higher eukaryote gene annotation
    Jonathan M Mudge
    Department of Computational Genomics, Wellcome Trust Sanger Institute, Hinxton CB10 1SA, UK
    Nat Rev Genet 17:758-772. 2016
    ..The catalogues that are being produced are key resources for genome exploration, especially as they become integrated with expression, epigenomic and variation data sets. Their creation, however, remains challenging...
  6. pmc Current status and new features of the Consensus Coding Sequence database
    Catherine M Farrell
    National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA, Center for Biomolecular Science and Engineering, University of California Santa Cruz UCSC, Santa Cruz, CA 95064, USA, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK and Howard Hughes Medical Institute, University of California Santa Cruz, Santa Cruz, CA 95064, USA
    Nucleic Acids Res 42:D865-72. 2014
    ..We also present a summary of recent and future curation targets. ..