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Identification of potential genes for human ischemic cardiomyopathy based on RNA-Seq data.

ABSTRACT: Ischemic cardiomyopathy (ICM) is an important cause of heart failure, yet no ICM disease genes were stored in any public databases. Mutations of genes provided by RNA-Seq data could set a foundation for a variety of biological processes. This also made it possible to elucidate the mechanism and identify potential genes for ICM. In this paper, an integrated co-expression network was constructed using univariate and bivariate canonical correlation analysis for RNA-Seq data of human ICM samples. Three ICM-related modules were recognized after comparing between Pearson correlation coefficients of ICM samples and normal controls. Furthermore, 32 ICM potential genes were identified from ICM-related modules considering protein-protein interactions. Most of these genes were verified to be involved in ICM and diseases caused it by OMIM and literature. Our study could provide a novel perspective for potential gene identification and the pathogenesis for ICM and other complex diseases.

SUBMITTER: Li W 

PROVIDER: S-EPMC5347674 | biostudies-literature | 2016 Dec

REPOSITORIES: biostudies-literature

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Identification of potential genes for human ischemic cardiomyopathy based on RNA-Seq data.

Li Wan W   Li Liansheng L   Zhang Shiying S   Zhang Ce C   Huang Hao H   Li Yiran Y   Hu Erqiang E   Deng Gui G   Guo Shanshan S   Wang Yahui Y   Li Weimin W   Chen Lina L  

Oncotarget 20161201 50

Ischemic cardiomyopathy (ICM) is an important cause of heart failure, yet no ICM disease genes were stored in any public databases. Mutations of genes provided by RNA-Seq data could set a foundation for a variety of biological processes. This also made it possible to elucidate the mechanism and identify potential genes for ICM. In this paper, an integrated co-expression network was constructed using univariate and bivariate canonical correlation analysis for RNA-Seq data of human ICM samples. Th  ...[more]

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