Journal
BRIEFINGS IN BIOINFORMATICS
Volume 10, Issue 2, Pages 177-192Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bib/bbp002
Keywords
Semantic Web; network biology; network medicine; graph mining; biomedical network analysis
Funding
- China national programs [NSFC60525202/NSFC60533040, 2003CB317006, 51306030101, 2006AA01A122, NSFC60503018]
- NSF [0524481]
- DARPA [55-002001, FA8650-06-C-7605]
- Div Of Information & Intelligent Systems
- Direct For Computer & Info Scie & Enginr [0524481] Funding Source: National Science Foundation
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The Semantic Web technology enables integration of heterogeneous data on the World Wide Web by making the semantics of data explicit through formal ontologies. In this article, we survey the feasibility and state of the art of utilizing the Semantic Web technology to represent, integrate and analyze the knowledge in various biomedical networks. We introduce a new conceptual framework, semantic graph mining, to enable researchers to integrate graph mining with ontology reasoning in network data analysis. Through four case studies, we demonstrate how semantic graph mining can be applied to the analysis of disease-causal genes, Gene Ontology category cross-talks, drug efficacy analysis and herbdrug interactions analysis.
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