TY - JOUR
T1 - A nanopublication framework for biological networks using Cytoscape.js
AU - McCusker, James P.
AU - Yan, R.
AU - Solanki, K.
AU - Erickson, J.
AU - Chang, C.
AU - Dumontier, M.
AU - Dordick, Jonathan S.
AU - McGuinness, Deborah L.
PY - 2014
Y1 - 2014
N2 - 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.
AB - 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.
M3 - Conference article in journal
SN - 1613-0073
VL - 1327
SP - 90
EP - 92
JO - CEUR Workshop Proceedings
JF - CEUR Workshop Proceedings
ER -