Nicolas Hulo

Summary

Affiliation: Swiss Institute of Bioinformatics
Country: Switzerland

Publications

  1. pmc The 20 years of PROSITE
    Nicolas Hulo
    Swiss Institute of Bioinformatics SIB, Centre Medical Universitaire, Structural Biology and Bioinformatics Department, University of Geneva, 1 rue Michel Servet, CH 1211 Geneva, Switzerland
    Nucleic Acids Res 36:D245-9. 2008
  2. pmc The PROSITE database
    Nicolas Hulo
    Swiss Institute of Bioinformatics SIB, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 34:D227-30. 2006
  3. pmc Recent improvements to the PROSITE database
    Nicolas Hulo
    Swiss Institute of Bioinformatics SIB, CMU, University of Geneva, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 32:D134-7. 2004
  4. pmc ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins
    Edouard De Castro
    Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH 1211 Geneva 4, Switzerland
    Nucleic Acids Res 34:W362-5. 2006
  5. pmc PROSITE, a protein domain database for functional characterization and annotation
    Christian J A Sigrist
    Structural Biology and Bioinformatics Department, University of Geneva, Swiss Institute of Bioinformatics, Centre Medical Universitaire, CH 1211 Geneva 4, Switzerland
    Nucleic Acids Res 38:D161-6. 2010
  6. ncbi ProRule: a new database containing functional and structural information on PROSITE profiles
    Christian J A Sigrist
    Swiss Institute of Bioinformatics SIB, 1 rue Michel Servet, CH 1211 Geneva 4, Switzerland
    Bioinformatics 21:4060-6. 2005
  7. pmc New and continuing developments at PROSITE
    Christian J A Sigrist
    SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire CMU, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 41:D344-7. 2013
  8. pmc PeroxiBase: a database with new tools for peroxidase family classification
    Dominique Koua
    Swiss Institute of Bioinformatics, Swiss Prot group, CMU, 1 rue Michel Servet, Laboratory of Plant Physiology, University of Geneva, Quai Ernest Ansermet 30, CH 1211 Geneva, Switzerland
    Nucleic Acids Res 37:D261-6. 2009
  9. ncbi PROSITE: a documented database using patterns and profiles as motif descriptors
    Christian J A Sigrist
    Swiss Institute of Bioinformatics CMU, University of Geneva
    Brief Bioinform 3:265-74. 2002
  10. pmc From protein sequences to 3D-structures and beyond: the example of the UniProt knowledgebase
    Ursula Hinz
    Swiss Prot group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, 1211, Geneva, Switzerland
    Cell Mol Life Sci 67:1049-64. 2010

Detail Information

Publications18

  1. pmc The 20 years of PROSITE
    Nicolas Hulo
    Swiss Institute of Bioinformatics SIB, Centre Medical Universitaire, Structural Biology and Bioinformatics Department, University of Geneva, 1 rue Michel Servet, CH 1211 Geneva, Switzerland
    Nucleic Acids Res 36:D245-9. 2008
    ..Over the past 2 years, about 200 domains have been added, and now 53% of UniProtKB/Swiss-Prot entries (release 54.2 of 11 September 2007) have a PROSITE match. PROSITE is available on the web at: http://www.expasy.org/prosite/...
  2. pmc The PROSITE database
    Nicolas Hulo
    Swiss Institute of Bioinformatics SIB, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 34:D227-30. 2006
    ..1 of September 27, 2005) have a cross-reference to a PROSITE entry. The database is accessible at http://www.expasy.org/prosite/...
  3. pmc Recent improvements to the PROSITE database
    Nicolas Hulo
    Swiss Institute of Bioinformatics SIB, CMU, University of Geneva, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 32:D134-7. 2004
    ..The latest version of PROSITE (release 18.17 of November 30, 2003) contains 1676 entries. The database is accessible at http://www.expasy.org/prosite/...
  4. pmc ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins
    Edouard De Castro
    Swiss Institute of Bioinformatics, 1 rue Michel Servet, CH 1211 Geneva 4, Switzerland
    Nucleic Acids Res 34:W362-5. 2006
    ..Several output modes are available including simple text views and a rich mode providing an interactive match and feature viewer with a graphical representation of results...
  5. pmc PROSITE, a protein domain database for functional characterization and annotation
    Christian J A Sigrist
    Structural Biology and Bioinformatics Department, University of Geneva, Swiss Institute of Bioinformatics, Centre Medical Universitaire, CH 1211 Geneva 4, Switzerland
    Nucleic Acids Res 38:D161-6. 2010
    ..The latest version of PROSITE (release 20.54, of 22 September 2009) contains 1308 patterns, 863 profiles and 869 ProRules. PROSITE is accessible at: http://www.expasy.org/prosite/...
  6. ncbi ProRule: a new database containing functional and structural information on PROSITE profiles
    Christian J A Sigrist
    Swiss Institute of Bioinformatics SIB, 1 rue Michel Servet, CH 1211 Geneva 4, Switzerland
    Bioinformatics 21:4060-6. 2005
    ..Increase the discriminatory power of PROSITE profiles to facilitate function determination and provide biologically relevant information about domains detected by profiles for the annotation of proteins...
  7. pmc New and continuing developments at PROSITE
    Christian J A Sigrist
    SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire CMU, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 41:D344-7. 2013
    ..The latest version of PROSITE (release 20.85, of 30 August 2012) contains 1308 patterns, 1039 profiles and 1041 ProRules...
  8. pmc PeroxiBase: a database with new tools for peroxidase family classification
    Dominique Koua
    Swiss Institute of Bioinformatics, Swiss Prot group, CMU, 1 rue Michel Servet, Laboratory of Plant Physiology, University of Geneva, Quai Ernest Ansermet 30, CH 1211 Geneva, Switzerland
    Nucleic Acids Res 37:D261-6. 2009
    ..The peroxidase classification tool called PeroxiScan is accessible at the following address: http://peroxibase.isb-sib.ch/peroxiscan.php...
  9. ncbi PROSITE: a documented database using patterns and profiles as motif descriptors
    Christian J A Sigrist
    Swiss Institute of Bioinformatics CMU, University of Geneva
    Brief Bioinform 3:265-74. 2002
    ..In return, PROSITE is used to help annotate SWISS-PROT entries. The main characteristics and the techniques of family and domain identification used by PROSITE are reviewed in this paper...
  10. pmc From protein sequences to 3D-structures and beyond: the example of the UniProt knowledgebase
    Ursula Hinz
    Swiss Prot group, Swiss Institute of Bioinformatics, 1 rue Michel Servet, 1211, Geneva, Switzerland
    Cell Mol Life Sci 67:1049-64. 2010
    ..uniprot.org/ ). It also evokes precautions that are necessary for successful predictions and extrapolations...
  11. ncbi A new gene in Drosophila melanogaster, Ravus, the phantom of the modifier of position-effect variegation Su(var)3-7
    Marion Delattre
    Department of Zoology and Animal Biology, University of Geneva, Switzerland
    Int J Dev Biol 46:167-71. 2002
    ..Ravus does not seem either to modify the genomic silencing of position-effect variegation, as over-expression of the transgene does not affect the variegated phenotype of a number of rearrangements tested...
  12. pmc 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...
  13. pmc The PROSITE database, its status in 2002
    Laurent Falquet
    Swiss Institute of Bioinformatics, Swiss Institute for Experimental Cancer Research ISREC, CH 1066 Epalinges Lausanne, Switzerland
    Nucleic Acids Res 30:235-8. 2002
    ....
  14. pmc InterPro, progress and status in 2005
    Nicola J Mulder
    EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Nucleic Acids Res 33:D201-5. 2005
    ..The database is available for text- and sequence-based searches via a webserver (http://www.ebi.ac.uk/interpro), and for download by anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro)...
  15. pmc The InterPro Database, 2003 brings increased coverage and new features
    Nicola J Mulder
    EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Nucleic Acids Res 31:315-8. 2003
    ..The database is available via a webserver (http://www.ebi.ac.uk/interpro) and anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro)...
  16. ncbi InterPro: an integrated documentation resource for protein families, domains and functional sites
    Nicola J Mulder
    EMBL Outstation, European Bioinformatics Institute, Hinxton, Cambridge, UK
    Brief Bioinform 3:225-35. 2002
    ..Each InterPro entry lists all the matches against SWISS-PROT and TrEMBL (2,141,621 InterPro hits from 586,124 SWISS-PROT and TrEMBL protein sequences). The database is freely accessible for text- and sequence-based searches...
  17. ncbi The novel yeast PAS kinase Rim 15 orchestrates G0-associated antioxidant defense mechanisms
    Elisabetta Cameroni
    Department of Microbiology and Molecular Medicine, Centre Medical Universitaire, Univeristy of Geneva, Switzerland
    Cell Cycle 3:462-8. 2004
    ....
  18. ncbi Yeast Mon2p is a highly conserved protein that functions in the cytoplasm-to-vacuole transport pathway and is required for Golgi homeostasis
    Jem A Efe
    Division of Biology, Department of Cellular and Molecular Medicine, and the Howard Hughes Medical Institute, University of California, San Diego, La Jolla, CA 92093 0668, USA
    J Cell Sci 118:4751-64. 2005
    ..We propose that Mon2p is a scaffold protein with novel conserved domains, and is involved in multiple aspects of endomembrane trafficking...