Seán I O'Donoghue

Summary

Affiliation: European Molecular Biology Laboratory
Country: Germany

Publications

  1. pmc Martini: using literature keywords to compare gene sets
    Theodoros G Soldatos
    European Molecular Biology Laboratory, 69117 Heidelberg, Germany
    Nucleic Acids Res 38:26-38. 2010
  2. doi request reprint Visualizing biological data-now and in the future
    Seán I O'Donoghue
    European Molecular Biology Laboratory, Heidelberg, Germany
    Nat Methods 7:S2-4. 2010
  3. doi request reprint Visualization of macromolecular structures
    Seán I O'Donoghue
    European Molecular Biology Laboratory, Heidelberg, Germany
    Nat Methods 7:S42-55. 2010
  4. pmc Caipirini: using gene sets to rank literature
    Theodoros G Soldatos
    Structural and Computational Biology Unit, European Molecular Biology Laboratory EMBL, Heidelberg, Germany
    BioData Min 5:1. 2012
  5. pmc Arena3D: visualization of biological networks in 3D
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg, Germany
    BMC Syst Biol 2:104. 2008
  6. pmc COMPARTMENTS: unification and visualization of protein subcellular localization evidence
    Janos X Binder
    Structural and Computational Biology Unit, European Molecular Biology Laboratory EMBL, 69117 Heidelberg, Germany, Bioinformatics Core Facility, Luxembourg Centre for Systems Biomedicine LCSB, University of Luxembourg, 4362 Esch sur Alzette, Luxembourg, Department of Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, 2200 Copenhagen, Denmark, CSIRO Computational Informatics, Sydney, NSW 2113 Australia and Garvan Institute of Medical Research, Sydney, NSW 2100, Australia
    Database (Oxford) 2014:bau012. 2014

Collaborators

Detail Information

Publications6

  1. pmc Martini: using literature keywords to compare gene sets
    Theodoros G Soldatos
    European Molecular Biology Laboratory, 69117 Heidelberg, Germany
    Nucleic Acids Res 38:26-38. 2010
    ..In agreement with previous studies, our results further suggest that literature-derived keywords are a richer source of gene-function information than GO annotations. Martini is freely available at http://martini.embl.de...
  2. doi request reprint Visualizing biological data-now and in the future
    Seán I O'Donoghue
    European Molecular Biology Laboratory, Heidelberg, Germany
    Nat Methods 7:S2-4. 2010
    ..For most users, a key challenge is to benefit from the deluge of data without being overwhelmed by it. This challenge is still largely unfulfilled and will require the development of truly integrated and highly useable tools...
  3. doi request reprint Visualization of macromolecular structures
    Seán I O'Donoghue
    European Molecular Biology Laboratory, Heidelberg, Germany
    Nat Methods 7:S42-55. 2010
    ..In this review, we focus on key biological questions where visualizing three-dimensional structures can provide insight and describe available methods and tools...
  4. pmc Caipirini: using gene sets to rank literature
    Theodoros G Soldatos
    Structural and Computational Biology Unit, European Molecular Biology Laboratory EMBL, Heidelberg, Germany
    BioData Min 5:1. 2012
    ..abstract:..
  5. pmc Arena3D: visualization of biological networks in 3D
    Georgios A Pavlopoulos
    Structural and Computational Biology Unit, EMBL, Meyerhofstrasse 1, Heidelberg, Germany
    BMC Syst Biol 2:104. 2008
    ..Our goal is to enable many thousands of entities to be visualized meaningfully and with high performance...
  6. pmc COMPARTMENTS: unification and visualization of protein subcellular localization evidence
    Janos X Binder
    Structural and Computational Biology Unit, European Molecular Biology Laboratory EMBL, 69117 Heidelberg, Germany, Bioinformatics Core Facility, Luxembourg Centre for Systems Biomedicine LCSB, University of Luxembourg, 4362 Esch sur Alzette, Luxembourg, Department of Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, 2200 Copenhagen, Denmark, CSIRO Computational Informatics, Sydney, NSW 2113 Australia and Garvan Institute of Medical Research, Sydney, NSW 2100, Australia
    Database (Oxford) 2014:bau012. 2014
    ..Finally, we visualize the unified localization evidence for a protein on a schematic cell to provide a simple overview. Database URL: http://compartments.jensenlab.org. ..