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| Content Provider | IEEE Xplore Digital Library |
|---|---|
| Author | Wenwen Min Juan Liu Fei Luo Shihua Zhang |
| Copyright Year | 2015 |
| Description | Author affiliation: Sch. of Comput., Wuhan Univ., Wuhan, China (Wenwen Min; Juan Liu; Fei Luo) || Nat. Center for Math. & Interdiscipl. Sci., Acad. of Math. & Syst. Sci., Beijing, China (Shihua Zhang) |
| Abstract | In this paper, we propose a two-stage method for identifying miRNA-gene regulatory modules by integrating miRNA/mRNA expression profiles and miRNA genomic cluster data. We first adopt a Multiple-output Sparse Group Lasso (MSGL) regression model to predict the miRNA-gene regulatory network. Further, we propose a L0-penalized Singular Value Decomposition (L0-SVD) model to identify modules from the predicted network. We apply this method to miRNA and mRNA expression profiles of the breast cancer data from TCGA databases and identify ten miRNA-gene regulatory modules. We find that (1) the modules are significantly associated in a predicted miRNA-gene regulatory network; (2) the modules are significantly enriched in GO biological processes and KEGG pathways, respectively; (3) many miRNAs and genes in the modules are related with breast cancer. On average, 51% of the miRNAs and 30% of the genes are related with breast cancer. The results demonstrate that miRNA-gene regulatory modules provide insights into the mechanisms of the combinatorial regulation between miRNAs and genes. |
| Sponsorship | IEEE |
| Starting Page | 151 |
| Ending Page | 156 |
| File Size | 689957 |
| Page Count | 6 |
| File Format | |
| e-ISBN | 9781467367998 |
| DOI | 10.1109/BIBM.2015.7359673 |
| Language | English |
| Publisher | Institute of Electrical and Electronics Engineers, Inc. (IEEE) |
| Publisher Date | 2015-11-09 |
| Publisher Place | USA |
| Access Restriction | Subscribed |
| Rights Holder | Institute of Electrical and Electronics Engineers, Inc. (IEEE) |
| Subject Keyword | Genomics Multiple-output Sparse Group Lasso (MSGL) miRNA-gene regulatory module miRNA cluster Bioinformatics L0-penalized Singular Value Decomposition (L0-SVD) |
| Content Type | Text |
| Resource Type | Article |
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