BERST: An Engine and Tool for Exploring Biomedical Entities and Relationships

BAI Tian; GE Yan; YANG Changqing; LIU Xiaohua; GONG Leiguang; WANG Ye; HUANG Lan

doi:10.1049/cje.2019.05.007

Volume 28 Issue 4

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BAI Tian, GE Yan, YANG Changqing, et al., “BERST: An Engine and Tool for Exploring Biomedical Entities and Relationships,” Chinese Journal of Electronics, vol. 28, no. 4, pp. 797-804, 2019, doi: 10.1049/cje.2019.05.007

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BAI Tian, GE Yan, YANG Changqing, et al., “BERST: An Engine and Tool for Exploring Biomedical Entities and Relationships,” Chinese Journal of Electronics, vol. 28, no. 4, pp. 797-804, 2019, doi: 10.1049/cje.2019.05.007

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BERST: An Engine and Tool for Exploring Biomedical Entities and Relationships

doi: 10.1049/cje.2019.05.007

BAI Tian^1,2,
GE Yan^1,2,
YANG Changqing¹,
LIU Xiaohua^1,2,
GONG Leiguang^1,4,
WANG Ye^1,2,
HUANG Lan^{1,2,3
,}

1.
College of Computer Science and Technology, Jilin University, Changchun 130012, China;
2.
Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun 130012, China;
3.
Department of Computer Science and Technology, Zhuhai College of Jilin University, Zhuhai 519041, China;
4.
Yantai Intelligent Information Technologies Ltd., Yantai 264005, China

Funds: This work is supported by the National Natural Science Foundation of China (No.61702214,No.61472159), Jilin Provincial Key Laboratory of Big Data Intelligent Computing (No.20180622002JC), Development Project of Jilin Province of China (No.20170101006JC), Premier-Discipline Enhancement Scheme supported by Zhuhai Government, Premier Key-Discipline Enhancement Scheme supported by Guangdong Government Funds, and the Fundamental Research Funds for the Central Universities, JLU.

More Information

Corresponding author: HUANG Lan (corresponding author) received the Ph.D. degree in 2003 from Jilin University, Changchun, China. She is presently a professor in the College of Computer Science and Technology at Jilin University. Her research interests include business intelligence theory and application research. (Email:huanglan@jlu.edu.cn)
Received Date: 2018-06-27
Rev Recd Date: 2019-01-27
Publish Date: 2019-07-10

Abstract

Abstract

To facilitate the search of rapidly growing biomedical knowledge in literature, we developed a Biomedical entity-relationship search tool (BERST). It is also a biomedical knowledge integration framework, which presently contains six popular databases represented in terms of a network of concepts and relations extracted from these knowledge sources. Users search the integrated knowledge network by entering keywords, and BERST returns a sub-network matching and representing the keywords and their relationships. The resulting graph can be navigated interactively allowing users to explore specific paths between any two nodes representing potentially interesting relationships between them. A graphical UI was developed to provide a more intuitive and overall view of the information being searched and studied. BERST framework can be naturally expanded to integrate other biomedical knowledge sources. BERST is implemented as a Java web application.
- Biomedical ontology,
- Relationship mining,
- Relationship searching tool

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References(32)

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