title: OWL reasoning framework over big biological knowledge network.
abstract: Recently, huge amounts of data are generated in the domain of biology. Embedded with domain knowledge from different disciplines, the isolated biological resources are implicitly connected. Thus it has shaped a big network of versatile biological knowledge. Faced with such massive, disparate, and interlinked biological data, providing an efficient way to model, integrate, and analyze the big biological network becomes a challenge. In this paper, we present a general OWL (web ontology language) reasoning framework to study the implicit relationships among biological entities. A comprehensive biological ontology across traditional Chinese medicine (TCM) and western medicine (WM) is used to create a conceptual model for the biological network. Then corresponding biological data is integrated into a biological knowledge network as the data model. Based on the conceptual model and data model, a scalable OWL reasoning method is utilized to infer the potential associations between biological entities from the biological network. In our experiment, we focus on the association discovery between TCM and WM. The derived associations are quite useful for biologists to promote the development of novel drugs and TCM modernization. The experimental results show that the system achieves high efficiency, accuracy, scalability, and effectivity.
authors.affiliation: Department of Computer Science, Zhejiang University, Hangzhou 310027, China.
authors.forename: Huajun
authors.initials: H
authors.lastname: Chen
authors.affiliation: Department of Computer Science, Zhejiang University, Hangzhou 310027, China.
authors.forename: Xi
authors.initials: X
authors.lastname: Chen
authors.affiliation: Department of Computer Science, Zhejiang University, Hangzhou 310027, China.
authors.forename: Peiqin
authors.initials: P
authors.lastname: Gu
authors.affiliation: Department of Computer Science, Zhejiang University, Hangzhou 310027, China.
authors.forename: Zhaohui
authors.initials: Z
authors.lastname: Wu
authors.affiliation: Institute of Information on Traditional Chinese Medicine, China Academy of Chinese Medical Sciences, Beijing 100700, China.
authors.forename: Tong
authors.initials: T
authors.lastname: Yu
mesh_terms: D000818:Animals; D016208:Databases, Factual; D006801:Humans; D016247:Information Storage and Retrieval; D019359:Knowledge; D008962:Models, Theoretical