A nanopublication framework for biological networks using Cytoscape.js

James P. McCusker, R. Yan, K. Solanki, J. Erickson, C. Chang, M. Dumontier, Jonathan S. Dordick, Deborah L. McGuinness

Research output: Contribution to journalConference article in journalAcademicpeer-review

Abstract

We leverage semantic technologies and Cytoscape.js to create a provenance-aware, probabilistic analysis platform for systems biology and evaluate its usefulness in discovering links between drugs and diseases. In our efforts to create a systematic approach to discovering new uses for existing drugs, we have developed Repurposing Drugs with Semantics (ReDrugS). ReDrugS is a data curation and publication framework that accepts data from nearly any database containing biological or chemical entity interactions and produces visualizations using Cytoscape.js. A semantic web service API is provided that enables search, traversal, and provides composite probabilities for the resulting graph of biological entities using the SADI web service framework and Nanopublications. We show how associations between a postive control, topiramate, allows us to independently reconstruct a positive control of epilepsy and migraine, and potential consequences on bone health.

Original languageEnglish
Pages (from-to)90-92
Number of pages3
JournalCEUR Workshop Proceedings
Volume1327
Publication statusPublished - 2014
Externally publishedYes

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