Corin Yeats

Summary

Affiliation: University College London
Country: UK

Publications

  1. ncbi The Gene3D Web Services: a platform for identifying, annotating and comparing structural domains in protein sequences
    Corin Yeats
    Research Department of Structural and Molecular Biology, Institute of Structural and Molecular Biology, University College London, Darwin Building, Gower St, London WC1E 6BT, UK
    Nucleic Acids Res 39:W546-50. 2011
  2. ncbi A fast and automated solution for accurately resolving protein domain architectures
    Corin Yeats
    Department of Structural and Molecular Biology, UCL, London WC1E 6BT, UK
    Bioinformatics 26:745-51. 2010
  3. ncbi Gene3D: modelling protein structure, function and evolution
    Corin Yeats
    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London, WC1E 6BT, UK
    Nucleic Acids Res 34:D281-4. 2006
  4. ncbi Gene3D: comprehensive structural and functional annotation of genomes
    Corin Yeats
    UCL, Department of Molecular Biology and Biochemistry, Darwin Building, Gower St, London, UK
    Nucleic Acids Res 36:D414-8. 2008
  5. ncbi Gene3D: merging structure and function for a Thousand genomes
    Jonathan Lees
    Department of Biochemistry and Molecular Biology, University College London, Gower St, London WC1 6BT, UK
    Nucleic Acids Res 38:D296-300. 2010
  6. ncbi The CATH domain structure database: new protocols and classification levels give a more comprehensive resource for exploring evolution
    Lesley H Greene
    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London WC1E 6BT, UK
    Nucleic Acids Res 35:D291-7. 2007
  7. ncbi Exploiting protein structure data to explore the evolution of protein function and biological complexity
    Russell L Marsden
    Department of Biochemistry, University College London Gower Street, London WC1E 6BT, UK
    Philos Trans R Soc Lond B Biol Sci 361:425-40. 2006
  8. ncbi Predicting protein function with hierarchical phylogenetic profiles: the Gene3D Phylo-Tuner method applied to eukaryotic genomes
    Juan A G Ranea
    Department of Biochemistry and Molecular Biology, University College London, London, United Kingdom
    PLoS Comput Biol 3:e237. 2007
  9. ncbi The evolution of protein functions and networks: a family-centric approach
    Benoit H Dessailly
    Department of Structural and Molecular Biology, University College London, London WC1E 6BT, UK
    Biochem Soc Trans 37:745-50. 2009
  10. ncbi Comprehensive genome analysis of 203 genomes provides structural genomics with new insights into protein family space
    Russell L Marsden
    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London WC1E 6BT, UK
    Nucleic Acids Res 34:1066-80. 2006

Detail Information

Publications23

  1. ncbi The Gene3D Web Services: a platform for identifying, annotating and comparing structural domains in protein sequences
    Corin Yeats
    Research Department of Structural and Molecular Biology, Institute of Structural and Molecular Biology, University College London, Darwin Building, Gower St, London WC1E 6BT, UK
    Nucleic Acids Res 39:W546-50. 2011
    ..Hence, they provide a simple, but flexible means of integrating domain annotations and associated data sets into locally run pipelines and analysis software. The services can be found at http://gene3d.biochem.ucl.ac.uk/WebServices/...
  2. ncbi A fast and automated solution for accurately resolving protein domain architectures
    Corin Yeats
    Department of Structural and Molecular Biology, UCL, London WC1E 6BT, UK
    Bioinformatics 26:745-51. 2010
    ....
  3. ncbi Gene3D: modelling protein structure, function and evolution
    Corin Yeats
    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London, WC1E 6BT, UK
    Nucleic Acids Res 34:D281-4. 2006
    ..Furthermore, all data can be downloaded in a simple XML format, allowing users to carry out complex investigations at their own computers...
  4. ncbi Gene3D: comprehensive structural and functional annotation of genomes
    Corin Yeats
    UCL, Department of Molecular Biology and Biochemistry, Darwin Building, Gower St, London, UK
    Nucleic Acids Res 36:D414-8. 2008
    ..Currently Gene3D contains over 3.5 million domain assignments for nearly 5 million proteins including 527 completed genomes. This is available at: http://gene3d.biochem.ucl.ac.uk/..
  5. ncbi Gene3D: merging structure and function for a Thousand genomes
    Jonathan Lees
    Department of Biochemistry and Molecular Biology, University College London, Gower St, London WC1 6BT, UK
    Nucleic Acids Res 38:D296-300. 2010
    ..Gene3D also provides a set of services, including an interactive genome coverage graph visualizer, DAS annotation resources, sequence search facilities and SOAP services...
  6. ncbi The CATH domain structure database: new protocols and classification levels give a more comprehensive resource for exploring evolution
    Lesley H Greene
    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London WC1E 6BT, UK
    Nucleic Acids Res 35:D291-7. 2007
    ..CATH is directly linked to the Gene3D database which is a projection of CATH structural data onto approximately 2 million sequences in completed genomes and UniProt...
  7. ncbi Exploiting protein structure data to explore the evolution of protein function and biological complexity
    Russell L Marsden
    Department of Biochemistry, University College London Gower Street, London WC1E 6BT, UK
    Philos Trans R Soc Lond B Biol Sci 361:425-40. 2006
    ....
  8. ncbi Predicting protein function with hierarchical phylogenetic profiles: the Gene3D Phylo-Tuner method applied to eukaryotic genomes
    Juan A G Ranea
    Department of Biochemistry and Molecular Biology, University College London, London, United Kingdom
    PLoS Comput Biol 3:e237. 2007
    ..Our method finds functional relationships that are not detectable by the conventional presence-absence profile comparisons, and it does not require a priori any fixed criteria to define orthologous genes...
  9. ncbi The evolution of protein functions and networks: a family-centric approach
    Benoit H Dessailly
    Department of Structural and Molecular Biology, University College London, London WC1E 6BT, UK
    Biochem Soc Trans 37:745-50. 2009
    ..These analyses focus on structure-function relationships in very large and diverse superfamilies, and on the evolution of domain superfamily members in protein-protein complexes...
  10. ncbi Comprehensive genome analysis of 203 genomes provides structural genomics with new insights into protein family space
    Russell L Marsden
    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London WC1E 6BT, UK
    Nucleic Acids Res 34:1066-80. 2006
    ..However, in large families, additional structures should be determined as these would reveal more about the evolution of the family and enable a greater understanding of how function evolves...
  11. ncbi An integrated approach to the interpretation of single amino acid polymorphisms within the framework of CATH and Gene3D
    Jose M G Izarzugaza
    Institute of Structural and Molecular Biology, University College London, UK
    BMC Bioinformatics 10:S5. 2009
    ..Although many mutations occur within domains whose structure has been solved, many more occur within genes whose protein products have not been structurally characterized...
  12. ncbi Methods of remote homology detection can be combined to increase coverage by 10% in the midnight zone
    Adam James Reid
    Department of Biochemistry and Molecular Biology, University College London, Gower Street, London WC1E 6BT, UK
    Bioinformatics 23:2353-60. 2007
    ..As structural classifications traditionally act as the gold standard of homology this poses a challenge in benchmarking them...
  13. ncbi Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis
    Jonathan Lees
    Institute of Structural and Molecular Biology, University College London, Darwin Building, Gower St, London WC1E 6BT, UK
    Nucleic Acids Res 40:D465-71. 2012
    ....
  14. ncbi New developments in the InterPro database
    Nicola J Mulder
    EMBL Outstation European Bioinformatics Institute Hinxton, Cambridge, UK
    Nucleic Acids Res 35:D224-8. 2007
    ..ebi.ac.uk/interpro), and for download by anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro). The InterProScan search tool is now also available via a web service at http://www.ebi.ac.uk/Tools/webservices/WSInterProScan.html...
  15. ncbi The Pfam protein families database
    Alex Bateman
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Nucleic Acids Res 32:D138-41. 2004
    ..Pfam is available on the web in the UK (http://www.sanger.ac.uk/Software/Pfam/), the USA (http://pfam.wustl.edu/), France (http://pfam.jouy.inra.fr/) and Sweden (http://Pfam.cgb.ki.se/)...
  16. ncbi The PASTA domain: a beta-lactam-binding domain
    Corin Yeats
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK CB10 1SA
    Trends Biochem Sci 27:438. 2002
    ..We postulate that PknB-like kinases are key regulators of cell-wall biosynthesis. The essential function of these enzymes suggests an additional pathway for the action of beta-lactam antibiotics...
  17. ncbi The G5 domain: a potential N-acetylglucosamine recognition domain involved in biofilm formation
    Alex Bateman
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Bioinformatics 21:1301-3. 2005
    ..A common feature of the proteins containing G5 domains is N-acetylglucosamine binding, and we attribute this function to the G5 domain. CONTACT: agb@sanger.ac.uk...
  18. ncbi The Chlamydophila abortus genome sequence reveals an array of variable proteins that contribute to interspecies variation
    Nicholas R Thomson
    The Pathogen Sequencing Unit, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, United Kingdom
    Genome Res 15:629-40. 2005
    ....
  19. ncbi The implications of alternative splicing in the ENCODE protein complement
    Michael L Tress
    Structural Computational Biology Programme, Spanish National Cancer Research Centre, E 28029 Madrid, Spain
    Proc Natl Acad Sci U S A 104:5495-500. 2007
    ....
  20. ncbi The PepSY domain: a regulator of peptidase activity in the microbial environment?
    Corin Yeats
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    Trends Biochem Sci 29:169-72. 2004
  21. ncbi The BON domain: a putative membrane-binding domain
    Corin Yeats
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, UK CB10 1SA
    Trends Biochem Sci 28:352-5. 2003
  22. ncbi New knowledge from old: in silico discovery of novel protein domains in Streptomyces coelicolor
    Corin Yeats
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, CB10 1SA, UK
    BMC Microbiol 3:3. 2003
    ..We sought to expand our understanding of this organism at the molecular level through identification and annotation of novel protein domains. Protein domains are the evolutionary conserved units from which proteins are formed...
  23. ncbi Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei
    Matthew T G Holden
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, United Kingdom
    Proc Natl Acad Sci U S A 101:14240-5. 2004
    ..mallei. We propose that variable horizontal gene acquisition by B. pseudomallei is an important feature of recent genetic evolution and that this has resulted in a genetically diverse pathogenic species...