HCLSIG/PharmaOntology

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Translational Medicine

The Translational Medicine task force aims to demonstrate how information-based translational medicine activities can be made easier and more effective using semantic web technologies. Our main activity then is to develop a prototype knowledge base that captures terminology and expert knowledge as formal ontologies for which automated reasoning becomes possible, and have the ontology act as a global schema for the growing amounts of open, linked biomedical data that are part of the Semantic Web. We hope to demonstrate that the system can be used to

  • integrate patient data with ontologies and linked open (drug) data
  • identify suitable patients for clinical trials
  • present personalized medical treatments
  • augment drug discovery
  • create new opportunities across basic science, clinical research and medical care

Our efforts should enable researchers to answer new questions faster thereby reducing the globally redundant burden of integrating heterogeneous data while increasing the overall success of drug-related projects. Indeed, part of our goal is to demonstrate how pharmaceutical companies can benefit from a decentralization of data access and focus instead on analyzing patient and cohort data against the most advanced biomedical knowledge.

Coordinator

The task coordinator is Michel Dumontier

Teleconference

Be an active participant by joining our next teleconference call

Roadmap

Topics that we intend to pursue

Deliverables

Outreach

Outreach ideas

Participants

  • Bosse Andersson, AstraZeneca
  • Colin Batchelor, Royal Society of Chemistry
  • Mike Bevil, Merck
  • Olivier Bodenreider, NIH
  • Tim Clark, Harvard Medical School
  • Christi Denney, Eli Lilly
  • Christopher Domarew, Warrington Hospital
  • Conor Dowling, Caregraf
  • Michel Dumontier, Carleton University
  • Robert Freimuth, Mayo Clinic
  • Janos Hajagos, Stony Brook University School of Medicine
  • Lee Harland, Pfizer
  • Anja Jentzsch, Free University Berlin
  • Vipul Kashyap, Cigna
  • Peter Kos, Harvard Medical School
  • Julia Kozlovsky, AstraZeneca
  • Joanne Luciano, Predictive Medicine, Inc., Tetherless World Constellation RPI
  • John Madden, Duke
  • M. Scott Marshall, University of Amsterdam
  • Jim McGurk, Daiichi Sankyo
  • Mark Musen, Stanford
  • Eric Neumann, CSG
  • Chimezie Ogbuji, Cleveland Clinic
  • Elgar Pichler,
  • Eric Prud'hommeaux, W3C
  • Matthias Samwald, DERI
  • Claudia Schepers, Merck KGaA
  • Lynn Schriml, University of Maryland
  • David Sedlock, Millennium Pharmaceuticals
  • Ted Slater, Boehringer Ingelheim
  • Skip Snow, Kaiser Permanente
  • Larissa Soldatova, Aberystwyth University
  • Koji Sonoda, Amgen
  • Holger Stenzhorn, DERI
  • Susie Stephens, Johnson & Johnson Pharmaceutical Research & Development
  • Sándor Szalma, Centocor
  • Trish Whetzel, Stanford
  • Elizabeth Wu, Alzheimer Research Forum
  • Jun Zhao, Oxford University