Brigitte Boeckmann

Summary

Affiliation: Swiss Institute of Bioinformatics
Country: Switzerland

Publications

  1. doi Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream
    Brigitte Boeckmann
    Swiss Prot, Swiss Institute of Bioinformatics, Geneva, Switzerland
    Genome Biol Evol 7:1988-99. 2015
  2. pmc Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees
    Brigitte Boeckmann
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1211 Geneva 4, Switzerland
    Brief Bioinform 12:423-35. 2011
  3. pmc The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
    Brigitte Boeckmann
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 31:365-70. 2003
  4. ncbi Protein variety and functional diversity: Swiss-Prot annotation in its biological context
    Brigitte Boeckmann
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1, rue Michel Servet, 1211 Geneve 4, Switzerland
    C R Biol 328:882-99. 2005
  5. pmc The Universal Protein Resource (UniProt)
    Amos Bairoch
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 33:D154-9. 2005
  6. 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
  7. ncbi Annotation of post-translational modifications in the Swiss-Prot knowledge base
    Nathalie Farriol-Mathis
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, Geneva, Switzerland
    Proteomics 4:1537-50. 2004
  8. ncbi Swiss-Prot: juggling between evolution and stability
    Amos Bairoch
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Brief Bioinform 5:39-55. 2004
  9. pmc Evolution of the ferric reductase domain (FRD) superfamily: modularity, functional diversification, and signature motifs
    Xuezhi Zhang
    Department of Biochemistry, Science II, University of Geneva, Geneva, Switzerland
    PLoS ONE 8:e58126. 2013
  10. pmc Big data and other challenges in the quest for orthologs
    Erik L L Sonnhammer
    Stockholm Bioinformatics Center, Science for Life Laboratory, Box 1031, SE 17121 Solna, Sweden, Swedish eScience Research Center, Stockholm, Department of Biochemistry and Biophysics, Stockholm University, SE 106 91 Stockholm, Sweden, Bioinformatics and Genomics Programme, Centre for Genomic Regulation CRG, 08003 Barcelona, Spain, Universitat Pompeu Fabra UPF, 08003 Barcelona, Spain, Institucio Catalana de Recerca i Estudis Avancats ICREA, 08010 Barcelona, Spain, EMBL European Bioinformatics Institute, Hinxton CB10 1SD, UK, Department of Ecology and Evolution, University of Lausanne, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland, SwissProt, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, Division of Bioinformatics, Department of Preventive Medicine, University of Southern California, Los Angeles, CA 90089, USA and Department of Genetics, Evolution and Environment, and Department of Computer Science, University College London, Gower St, London WC1E 6BT, UK Stockholm Bioinformatics Center
    Bioinformatics 30:2993-8. 2014

Detail Information

Publications10

  1. doi Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream
    Brigitte Boeckmann
    Swiss Prot, Swiss Institute of Bioinformatics, Geneva, Switzerland
    Genome Biol Evol 7:1988-99. 2015
    ..Results are summarized in the form of a consensus ToL (http://swisstree.vital-it.ch/species_tree) that can serve different benchmarking purposes. ..
  2. pmc Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees
    Brigitte Boeckmann
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1211 Geneva 4, Switzerland
    Brief Bioinform 12:423-35. 2011
    ....
  3. pmc The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
    Brigitte Boeckmann
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 31:365-70. 2003
    ..Researchers are welcome to contribute their knowledge to the scientific community by submitting relevant findings to SWISS-PROT at swiss-prot@expasy.org...
  4. ncbi Protein variety and functional diversity: Swiss-Prot annotation in its biological context
    Brigitte Boeckmann
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1, rue Michel Servet, 1211 Geneve 4, Switzerland
    C R Biol 328:882-99. 2005
    ..Examples for such annotation are shown and further ones are available at http://www.expasy.org/sprot/tutorial/examples_CRB...
  5. pmc The Universal Protein Resource (UniProt)
    Amos Bairoch
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Nucleic Acids Res 33:D154-9. 2005
    ..The UniProt databases can be accessed online (http://www.uniprot.org) or downloaded in several formats (ftp://ftp.uniprot.org/pub). New releases are published every two weeks...
  6. 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...
  7. ncbi Annotation of post-translational modifications in the Swiss-Prot knowledge base
    Nathalie Farriol-Mathis
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, Geneva, Switzerland
    Proteomics 4:1537-50. 2004
    ..Finally we encourage once again the scientific community (i.e., both individual researchers and database maintainers) to interact with us, so that we can continuously enhance the quality and swiftness of our services...
  8. ncbi Swiss-Prot: juggling between evolution and stability
    Amos Bairoch
    Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
    Brief Bioinform 5:39-55. 2004
    ....
  9. pmc Evolution of the ferric reductase domain (FRD) superfamily: modularity, functional diversification, and signature motifs
    Xuezhi Zhang
    Department of Biochemistry, Science II, University of Geneva, Geneva, Switzerland
    PLoS ONE 8:e58126. 2013
    ..The FRD superfamily most likely originated in bacteria...
  10. pmc Big data and other challenges in the quest for orthologs
    Erik L L Sonnhammer
    Stockholm Bioinformatics Center, Science for Life Laboratory, Box 1031, SE 17121 Solna, Sweden, Swedish eScience Research Center, Stockholm, Department of Biochemistry and Biophysics, Stockholm University, SE 106 91 Stockholm, Sweden, Bioinformatics and Genomics Programme, Centre for Genomic Regulation CRG, 08003 Barcelona, Spain, Universitat Pompeu Fabra UPF, 08003 Barcelona, Spain, Institucio Catalana de Recerca i Estudis Avancats ICREA, 08010 Barcelona, Spain, EMBL European Bioinformatics Institute, Hinxton CB10 1SD, UK, Department of Ecology and Evolution, University of Lausanne, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland, SwissProt, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, Division of Bioinformatics, Department of Preventive Medicine, University of Southern California, Los Angeles, CA 90089, USA and Department of Genetics, Evolution and Environment, and Department of Computer Science, University College London, Gower St, London WC1E 6BT, UK Stockholm Bioinformatics Center
    Bioinformatics 30:2993-8. 2014
    ....