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Algorithms 2017, 10(4), 136; doi:10.3390/a10040136

Detecting Composite Functional Module in miRNA Regulation and mRNA Interaction Network

Department of Information Technology, Hunan Women’s University, Changsha 410004, China
College of Computer Science and Electronic Engineering, Hunan University, Changsha 410082, China
Author to whom correspondence should be addressed.
Received: 17 September 2017 / Revised: 1 December 2017 / Accepted: 2 December 2017 / Published: 5 December 2017
(This article belongs to the Special Issue Bioinformatics Algorithms and Applications)
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The detection of composite miRNA functional module (CMFM) is of tremendous significance and helps in understanding the organization, regulation and execution of cell processes in cancer, but how to identify functional CMFMs is still a computational challenge. In this paper we propose a novel module detection method called MBCFM (detecting Composite Function Modules based on Maximal Biclique enumeration), specifically designed to bicluster miRNAs and target messenger RNAs (mRNAs) on the basis of multiple biological interaction information and topical network features. In this method, we employ algorithm MICA to enumerate all maximal bicliques and further extract R-pairs from the miRNA-mRNA regulatory network. Compared with two existing methods, Mirsynergy and SNMNMF on ovarian cancer dataset, the proposed method of MBCFM is not only able to extract cohesiveness-preserved CMFMs but also has high efficiency in running time. More importantly, MBCFM can be applied to detect other cancer-associated miRNA functional modules. View Full-Text
Keywords: composite miRNA functional module; maximal bicliques; R-pairs composite miRNA functional module; maximal bicliques; R-pairs

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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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Yang, Y.; Pan, C. Detecting Composite Functional Module in miRNA Regulation and mRNA Interaction Network. Algorithms 2017, 10, 136.

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