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iExplore: Interactive Browsing and Exploring Biomedical Knowledge
Kno.e.sis Publications
  • Vinh Nguyen, Wright State University - Main Campus
  • Olivier Bodenreider
  • Jagannathan Srinivasan
  • Todd Minning
  • Thomas Rindflesch
  • Bastien Rance
  • Ramakanth Kavuluru, Wright State University - Main Campus
  • Himi Yalamanchili, Wright State University - Main Campus
  • Krishnaprasad Thirunarayan, Wright State University - Main Campus
  • Satya S. Sahoo, Wright State University - Main Campus
  • Amit P. Sheth, Wright State University - Main Campus
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We present iExplore, a Semantic Web based application that helps biomedical researchers study and explore biomedical knowledge interactively. iExplore uses the Biomedical Knowledge Repository (BKR), which integrates knowledge from various sources ranging from information extracted from biomedical literature (from PubMed) to many structured vocabularies in the Unified Medical Language System (UMLS). The current version of BKR provides a unified provenance representation for 12 million semantic predications (triples with a predicate connecting a subject and an object) derived from 87 vocabulary families in the UMLS and 14 million predications extracted from 21 million PubMed abstracts. To engage the domain experts in studying and exploring such a comprehensive knowledge base, we developed the iExplore to: 1) visualize and navigate all the possible semantic predications related to concepts of interest, and 2) search for interesting links between concepts. We also provide an authorization mechanism for SPARQL queries generated by the iExplore to support licensed access to UMLS. We demonstrate the use of iExplore in two scenarios: 1) current research in biomedicine, and 2) re-exploration of two previously known literature-based discoveries.


Entered in the Semantic Web Challenge as part of the 11th International Semantic Web Conference, Boston, MA, November 11-15, 2012.

Citation Information
Vinh Nguyen, Olivier Bodenreider, Jagannathan Srinivasan, Todd Minning, et al.. "iExplore: Interactive Browsing and Exploring Biomedical Knowledge" (2012)
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