Gene Module Based Regulator Inference Identifying miR-139 as a Tumor Suppressor in Colorectal Cancer

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Gene Module Based Regulator Inference Identifying miR-139 as a Tumor Suppressor in Colorectal Cancer

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Title: Gene Module Based Regulator Inference Identifying miR-139 as a Tumor Suppressor in Colorectal Cancer
Author(s):
Gu, J.;
Chen, Y.;
Huang, H.;
Yin, L.;
Xie, Z.;
Zhang, Michael Q. (UT Dallas)
Item Type: Article
Keywords: Show Keywords
Abstract: Colorectal cancer is one of the most commonly diagnosed cancer types worldwide. Identification of the key regulators of the altered biological networks is crucial for understanding the complex molecular mechanisms of colorectal cancer. We proposed a gene module based approach to infer key miRNAs regulating the major gene network alterations in cancer tissues. By integrating gene differential expression and co-expression information with a protein-protein interaction network, the differential gene expression modules, which captured the major gene network changes, were identified for colorectal cancer. Then, several key miRNAs, which extensively regulate the gene modules, were inferred by analyzing their target gene enrichment in the modules. Among the inferred candidates, three miRNAs, miR-101, miR-124 and miR-139, are frequently down-regulated in colorectal cancers. The following computational and experimental analyses demonstrate that miR-139 can inhibit cell proliferation and cell cycle G1/S transition. A known oncogene ETS1, a key transcription factor in the gene module, was experimentally verified as a novel target of miR-139. miR-139 was found to be significantly down-regulated in early pathological cancer stages and its expression remained at very low levels in advanced stages. These results indicate that miR-139, inferred by the gene module based approach, should be a key tumor suppressor in early cancer development.
Publisher: Royal Society of Chemistry
ISSN: 1742-206X
Persistent Link: http://hdl.handle.net/10735.1/4229
http://dx.doi.org/10.1039/c4mb00329b
Terms of Use: CC-BY-NC 3.0 (Attribution−Non Commercial)
©2014 The Royal Society of Chemistry
Sponsors: National Basic Research Program of China (2012CB316503); National Natural Science Foundation of China (61005040, 61370035, 61105003, 31301044)

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CC-BY-NC 3.0 (Attribution−Non Commercial) Except where otherwise noted, this item's license is described as CC-BY-NC 3.0 (Attribution−Non Commercial)