Nicolas Hulo

Summary

Affiliation: Swiss Institute of Bioinformatics
Country: Switzerland

Publications

  1. 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
  2. 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
  3. 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
  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. 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
  7. 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
  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 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/...
  2. 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/...
  3. 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/...
  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. 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...
  7. 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...
  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...