Jennifer L Harrow

Summary

Affiliation: Wellcome Trust Genome Campus
Country: UK

Publications

  1. pmc Structural and functional annotation of the porcine immunome
    Harry D Dawson
    USDA ARS, Beltsville Human Nutrition Research Center, Diet, Genomics, Immunology Laboratory, Beltsville, MD 20705, USA
    BMC Genomics 14:332. 2013
  2. pmc GENCODE: the reference human genome annotation for The ENCODE Project
    Jennifer Harrow
    Wellcome Trust Sanger Institute, Wellcome Trust Campus, Hinxton, Cambridge CB10 1SA, United Kingdom
    Genome Res 22:1760-74. 2012
  3. pmc Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates
    Zhengdong D Zhang
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA
    Genome Biol 11:R26. 2010
  4. pmc The tammar wallaby major histocompatibility complex shows evidence of past genomic instability
    Hannah V Siddle
    Faculty of Veterinary Science, University of Sydney, NSW 2006, Australia
    BMC Genomics 12:421. 2011
  5. pmc AnnoTrack--a tracking system for genome annotation
    Felix Kokocinski
    Vertebrate Genome Analysis, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB101HH, UK
    BMC Genomics 11:538. 2010
  6. pmc MHC-linked and un-linked class I genes in the wallaby
    Hannah V Siddle
    Faculty of Veterinary Science, University of Sydney, NSW 2006, Australia
    BMC Genomics 10:310. 2009
  7. pmc GENCODE: producing a reference annotation for ENCODE
    Jennifer Harrow
    Wellcome Trust Sanger Institute, Wellcome Trust Campus, Hinxton, Cambridge CB10 1SA, UK
    Genome Biol 7:S4.1-9. 2006
  8. pmc The Vertebrate Genome Annotation (Vega) database
    J L Ashurst
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    Nucleic Acids Res 33:D459-65. 2005
  9. ncbi request reprint Gene annotation: prediction and testing
    Jennifer L Ashurst
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, United Kingdom
    Annu Rev Genomics Hum Genet 4:69-88. 2003
  10. ncbi request reprint The DNA sequence and comparative analysis of human chromosome 10
    P Deloukas
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Nature 429:375-81. 2004

Collaborators

Detail Information

Publications22

  1. pmc Structural and functional annotation of the porcine immunome
    Harry D Dawson
    USDA ARS, Beltsville Human Nutrition Research Center, Diet, Genomics, Immunology Laboratory, Beltsville, MD 20705, USA
    BMC Genomics 14:332. 2013
    ..The completion of the pig genome provides the opportunity to annotate the pig immunome, and compare and contrast pig and human immune systems...
  2. pmc GENCODE: the reference human genome annotation for The ENCODE Project
    Jennifer Harrow
    Wellcome Trust Sanger Institute, Wellcome Trust Campus, Hinxton, Cambridge CB10 1SA, United Kingdom
    Genome Res 22:1760-74. 2012
    ..GENCODE 7 is publicly available from gencodegenes.org and via the Ensembl and UCSC Genome Browsers...
  3. pmc Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates
    Zhengdong D Zhang
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA
    Genome Biol 11:R26. 2010
    ..They constitute only a small fraction of annotated pseudogenes in the human genome. However, as they represent distinct functional losses over time, they shed light on the unique features of humans in primate evolution...
  4. pmc The tammar wallaby major histocompatibility complex shows evidence of past genomic instability
    Hannah V Siddle
    Faculty of Veterinary Science, University of Sydney, NSW 2006, Australia
    BMC Genomics 12:421. 2011
    ..The tammar wallaby (Macropus eugenii), an Australian marsupial, provides a unique model for understanding MHC gene evolution, as many of its antigen presenting genes are not linked to the MHC, but are scattered around the genome...
  5. pmc AnnoTrack--a tracking system for genome annotation
    Felix Kokocinski
    Vertebrate Genome Analysis, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB101HH, UK
    BMC Genomics 11:538. 2010
    ..This kind of collaborative annotation project requires specialized software solutions for efficient data tracking and processing...
  6. pmc MHC-linked and un-linked class I genes in the wallaby
    Hannah V Siddle
    Faculty of Veterinary Science, University of Sydney, NSW 2006, Australia
    BMC Genomics 10:310. 2009
    ..We investigated this hypothesis by characterizing the class I genes of the tammar wallaby, a model marsupial that has a novel MHC organization, with class I genes located within the MHC and 10 other chromosomal locations...
  7. pmc GENCODE: producing a reference annotation for ENCODE
    Jennifer Harrow
    Wellcome Trust Sanger Institute, Wellcome Trust Campus, Hinxton, Cambridge CB10 1SA, UK
    Genome Biol 7:S4.1-9. 2006
    ..This was achieved by a combination of initial manual annotation by the HAVANA team, experimental validation by the GENCODE consortium and a refinement of the annotation based on these experimental results...
  8. pmc The Vertebrate Genome Annotation (Vega) database
    J L Ashurst
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    Nucleic Acids Res 33:D459-65. 2005
    ..Attempts have been made to standardize the annotation procedure across each vertebrate genome, which should aid comparative analysis of orthologues across the different finished regions...
  9. ncbi request reprint Gene annotation: prediction and testing
    Jennifer L Ashurst
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, United Kingdom
    Annu Rev Genomics Hum Genet 4:69-88. 2003
    ..Such a highly curated human gene-set made publicly available will be a great asset for the experimental community and for future comparative genome projects...
  10. ncbi request reprint The DNA sequence and comparative analysis of human chromosome 10
    P Deloukas
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Nature 429:375-81. 2004
    ..Assessment of single base changes between the human chromosome 10 and chimpanzee sequence revealed nonsense mutations in only 21 coding genes with respect to the human sequence...
  11. ncbi request reprint The Vertebrate Genome Annotation browser 10 years on
    Jennifer L Harrow
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1HH, UK
    Nucleic Acids Res 42:D771-9. 2014
    ..We also highlight how the user can browse manually annotated updated patches from the Genome Reference Consortium (GRC). ..
  12. pmc DNA sequence and analysis of human chromosome 9
    S J Humphray
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Nature 429:369-74. 2004
    ..We have also detected recently duplicated genes that exhibit different rates of sequence divergence, presumably reflecting natural selection...
  13. ncbi request reprint 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. ..
  14. pmc Manual annotation and analysis of the defensin gene cluster in the C57BL/6J mouse reference genome
    Clara Amid
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    BMC Genomics 10:606. 2009
    ..Defensins have been studied for over two decades and their naming has become a critical issue due to incorrect identification of defensin genes derived from different mouse strains and the duplicated nature of this region...
  15. pmc The non-obese diabetic mouse sequence, annotation and variation resource: an aid for investigating type 1 diabetes
    Charles A Steward
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK
    Database (Oxford) 2013:bat032. 2013
    ..Database URLs: http://www.sanger.ac.uk/resources/mouse/nod/; http://vega-previous.sanger.ac.uk/info/data/mouse_regions.html#Idd..
  16. pmc Sequencing and comparative analysis of the gorilla MHC genomic sequence
    Laurens G Wilming
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1HH, UK
    Database (Oxford) 2013:bat011. 2013
    ..Our analysis, which is freely available through the VEGA genome browser, provides the research community with a comprehensive dataset for comparative and evolutionary research of the MHC...
  17. pmc The DNA sequence and analysis of human chromosome 13
    A Dunham
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, UK
    Nature 428:522-8. 2004
    ..Chromosome 13 has one of the lowest gene densities (6.5 genes per Mb) among human chromosomes, and contains a central region of 38 Mb where the gene density drops to only 3.1 genes per Mb...
  18. pmc Variation analysis and gene annotation of eight MHC haplotypes: the MHC Haplotype Project
    Roger Horton
    Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge, CB10 1SA, UK
    Immunogenetics 60:1-18. 2008
    ....
  19. pmc Lessons learned from the initial sequencing of the pig genome: comparative analysis of an 8 Mb region of pig chromosome 17
    Elizabeth A Hart
    Wellcome Trust Sanger Institute, Wellcome Tust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Genome Biol 8:R168. 2007
    ..We report our findings comparing the annotation of draft sequence assembled at different depths of coverage...
  20. pmc Community gene annotation in practice
    Jane E Loveland
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, UK
    Database (Oxford) 2012:bas009. 2012
    ..We also describe the strategies adopted for annotation consistency, quality control and viewing of the annotation. DATABASE URL: http://vega.sanger.ac.uk/index.html...
  21. ncbi request reprint The DNA sequence and analysis of human chromosome 6
    A J Mungall
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Nature 425:805-11. 2003
    ..Within the essential immune loci of the major histocompatibility complex, we find HLA-B to be the most polymorphic gene on chromosome 6 and in the human genome...
  22. 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...