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Gene co-opening network deciphers gene functional relationships

Abstract

Genome sequencing technology has generated a vast amount of genomic and epigenomic data, and has provided us a great opportunity to study gene functions on a global scale from an epigenomic view. In the last decade, network-based studies, such as PPI networks and co-expression networks, have shown good performance in capturing functional relationships between genes. However, what functions a gene has and the mechanism how genes interact with each other to elucidate their functions are still not entirely clear. Here, we construct a gene co-opening network based on chromatin accessibility of genes. We show that genes related to a specific biological process or the same disease tend to be clustered in the co-opening network. This understanding allows us to detect functional clusters from the network and to predict new functions for genes. We further apply the network to prioritize disease genes for Psoriasis, and demonstrate the power of the joint analysis of the co-opening network and GWAS data in identifying disease genes. Taken together, the co-opening network provides a new viewpoint for the elucidation of gene associations and the interpretation of disease mechanisms.

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Supplementary files

Publication details

The article was received on 17 Jul 2017, accepted on 11 Sep 2017 and first published on 12 Sep 2017


Article type: Paper
DOI: 10.1039/C7MB00430C
Citation: Mol. BioSyst., 2017, Accepted Manuscript
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    Gene co-opening network deciphers gene functional relationships

    W. Li, M. Wang, J. Sun, Y. Wang and R. Jiang, Mol. BioSyst., 2017, Accepted Manuscript , DOI: 10.1039/C7MB00430C

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