P Kersey

Summary

Affiliation: Wellcome Trust Genome Campus
Country: UK

Publications

  1. pmc Ensembl Genomes: an integrative resource for genome-scale data from non-vertebrate species
    Paul J Kersey
    Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 40:D91-7. 2012
  2. pmc Ensembl Genomes: extending Ensembl across the taxonomic space
    P J Kersey
    EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge CB10 1SD, UK
    Nucleic Acids Res 38:D563-9. 2010
  3. ncbi request reprint Building a biological space based on protein sequence similarities and biological ontologies
    Paul Kersey
    EMBL Outstation The European Bioinfomatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Comb Chem High Throughput Screen 11:653-60. 2008
  4. ncbi request reprint Linking publication, gene and protein data
    Paul Kersey
    EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nat Cell Biol 8:1183-9. 2006
  5. pmc Integr8 and Genome Reviews: integrated views of complete genomes and proteomes
    Paul Kersey
    The EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 33:D297-302. 2005
  6. ncbi request reprint The International Protein Index: an integrated database for proteomics experiments
    Paul J Kersey
    EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK
    Proteomics 4:1985-8. 2004
  7. ncbi request reprint Integr8: enhanced inter-operability of European molecular biology databases
    P J Kersey
    The European Bioinformatics Institute, Cambridge, UK
    Methods Inf Med 42:154-60. 2003
  8. ncbi request reprint VARSPLIC: alternatively-spliced protein sequences derived from SWISS-PROT and TrEMBL
    P Kersey
    EMBL Outstation Hinxton, The European Bioinformatics Institute EBI, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK
    Bioinformatics 16:1048-9. 2000
  9. pmc Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes
    R Apweiler
    EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
    Nucleic Acids Res 29:44-8. 2001
  10. ncbi request reprint Applications of InterPro in protein annotation and genome analysis
    Margaret Biswas
    EBI, Hinxton, Cambridge, UK
    Brief Bioinform 3:285-95. 2002

Detail Information

Publications20

  1. pmc Ensembl Genomes: an integrative resource for genome-scale data from non-vertebrate species
    Paul J Kersey
    Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 40:D91-7. 2012
    ....
  2. pmc Ensembl Genomes: extending Ensembl across the taxonomic space
    P J Kersey
    EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge CB10 1SD, UK
    Nucleic Acids Res 38:D563-9. 2010
    ..Additionally, extensive comparative analysis has been performed, both within defined clades and across the wider taxonomy, and sequence alignments and gene trees resulting from this can be accessed through the site...
  3. ncbi request reprint Building a biological space based on protein sequence similarities and biological ontologies
    Paul Kersey
    EMBL Outstation The European Bioinfomatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Comb Chem High Throughput Screen 11:653-60. 2008
    ..Together, these techniques can provide an understanding of the shape of the protein space, and can be used to explore the unchartered waters of the emerging metagenomic world...
  4. ncbi request reprint Linking publication, gene and protein data
    Paul Kersey
    EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nat Cell Biol 8:1183-9. 2006
    ....
  5. pmc Integr8 and Genome Reviews: integrated views of complete genomes and proteomes
    Paul Kersey
    The EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 33:D297-302. 2005
    ..Integr8 also allows the users to customize their own interactive analysis, and to download both customized and prepared datasets for their own use. Integr8 is available at http://www.ebi.ac.uk/integr8...
  6. ncbi request reprint The International Protein Index: an integrated database for proteomics experiments
    Paul J Kersey
    EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK
    Proteomics 4:1985-8. 2004
    ..IPI (the International Protein Index) has been developed to address these issues and offers complete nonredundant data sets representing the human, mouse and rat proteomes, built from the Swiss-Prot, TrEMBL, Ensembl and RefSeq databases...
  7. ncbi request reprint Integr8: enhanced inter-operability of European molecular biology databases
    P J Kersey
    The European Bioinformatics Institute, Cambridge, UK
    Methods Inf Med 42:154-60. 2003
    ..The solution of this problem is made more difficult by the absence of universal identifiers for biological entities, and the breadth and variety of available data...
  8. ncbi request reprint VARSPLIC: alternatively-spliced protein sequences derived from SWISS-PROT and TrEMBL
    P Kersey
    EMBL Outstation Hinxton, The European Bioinformatics Institute EBI, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK
    Bioinformatics 16:1048-9. 2000
    ..The program varsplic.pl uses information present in the SWISS-PROT and TrEMBL databases to create new records for alternatively spliced isoforms. These new records can be used in similarity searches...
  9. pmc Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes
    R Apweiler
    EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
    Nucleic Acids Res 29:44-8. 2001
    ..The Proteome Analysis Database is accompanied by a program that has been designed to carry out InterPro proteome comparisons for any one proteome against any other one or more of the proteomes in the database...
  10. ncbi request reprint Applications of InterPro in protein annotation and genome analysis
    Margaret Biswas
    EBI, Hinxton, Cambridge, UK
    Brief Bioinform 3:285-95. 2002
    ..In the Proteome Analysis Database, InterPro analyses have been combined with other analyses based on CluSTr, the Gene Ontology (GO) and structural information on the proteins...
  11. ncbi request reprint Interactive InterPro-based comparisons of proteins in whole genomes
    A Kanapin
    EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK
    Bioinformatics 18:374-5. 2002
    ..The Proteome Analysis Database is accompanied by a program that has been designed to carry out interactive InterPro proteome comparisons for any one proteome against any other one or more of the proteomes in the database...
  12. ncbi request reprint Databases and resources for in silico proteome analysis
    Manuela Pruess
    European Bioinformatics Institute, Hinxton, Cambridge, United Kingdom
    Methods Biochem Anal 49:397-414. 2006
  13. ncbi request reprint The Integr8 project--a resource for genomic and proteomic data
    Manuela Pruess
    EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom
    In Silico Biol 5:179-85. 2005
    ..Customisable statistics data are available from the BioMart application, and pre-prepared data can be downloaded from the FTP site...
  14. pmc The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro
    Evelyn Camon
    EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
    Genome Res 13:662-72. 2003
    ..This vocabulary has also been applied to the nonredundant proteome sets for all other completely sequenced organisms as well as to proteins from a wide range of organisms where the proteome is not yet complete...
  15. pmc The Proteome Analysis database: a tool for the in silico analysis of whole proteomes
    Manuela Pruess
    EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
    Nucleic Acids Res 31:414-7. 2003
    ..Complete proteome analysis is available for a total of 89 proteome sets. A specifically designed application enables InterPro proteome comparisons for any one proteome against any other one or more of the proteomes in the database...
  16. doi request reprint In silico characterization of proteins: UniProt, InterPro and Integr8
    Nicola Jane Mulder
    EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
    Mol Biotechnol 38:165-77. 2008
    ..This article reviews the tools and resources available on the web for single and large-scale protein characterization and whole proteome analysis...
  17. ncbi request reprint The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data
    Henning Hermjakob
    European Bioinformatics Institute, EBI Hinxton, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Nat Biotechnol 22:177-83. 2004
    ....
  18. ncbi request reprint The EMBL Nucleotide Sequence and Genome Reviews Databases
    Peter Sterk
    EMBL Outstation the European Bioinformatics Institute, Welcome Trust Genome Campus, Hinxton, Cambridge, UK
    Methods Mol Biol 406:1-21. 2007
    ..Focusing on plant nucleotide sequences, we demonstrate how these data are accessed, how sequence similarity searches are performed and how we can obtain a wealth of additional information relating to genome sequences using Integr8...
  19. pmc Integrative annotation of 21,037 human genes validated by full-length cDNA clones
    Tadashi Imanishi
    Integrated Database Group, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, Tokyo, Japan
    PLoS Biol 2:e162. 2004
    ..The H-InvDB platform represents a substantial contribution to resources needed for the exploration of human biology and pathology...
  20. ncbi request reprint Automated annotation of microbial proteomes in SWISS-PROT
    Alexandre Gattiker
    Swiss Prot group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH 1211 Geneva 4, Switzerland
    Comput Biol Chem 27:49-58. 2003
    ..The results of this annotation are integrated in SWISS-PROT, and a website is provided at http://www.expasy.org/sprot/hamap/...