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Gene co-opening network deciphers gene functional relationships
Li, Wenran1,2; Wang, Meng1,2; Sun, Jinghao1,2; Wang, Yong3; Jiang, Rui1,2
2017-11-01
Source PublicationMOLECULAR BIOSYSTEMS
ISSN1742-206X
Volume13Issue:11Pages:2428-2439
AbstractGenome 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 those based on PPI networks and co-expression networks, have shown good performance in capturing functional relationships between genes. However, the functions of a gene and the mechanism of interaction of genes 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.
DOI10.1039/c7mb00430c
Language英语
Funding ProjectNational Natural Science Foundation of China[61721003] ; National Natural Science Foundation of China[61573207] ; National Natural Science Foundation of China[61671444] ; National Natural Science Foundation of China[11422108] ; National Natural Science Foundation of China[61175002] ; State Key Laboratory of Cardiovascular Disease[2016-kf04]
WOS Research AreaBiochemistry & Molecular Biology
WOS SubjectBiochemistry & Molecular Biology
WOS IDWOS:000413732100024
PublisherROYAL SOC CHEMISTRY
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Document Type期刊论文
Identifierhttp://ir.amss.ac.cn/handle/2S8OKBNM/29141
Collection应用数学研究所
Affiliation1.Tsinghua Univ, MOE, Key Lab Bioinformat, Bioinformat Div, Beijing 100084, Peoples R China
2.Tsinghua Univ, Dept Automat, Ctr Synthet & Syst Biol, TNLIST, Beijing 100084, Peoples R China
3.Chinese Acad Sci, Acad Math & Syst Sci, CEMS, NCMIS,MADIS, Beijing 100080, Peoples R China
Recommended Citation
GB/T 7714
Li, Wenran,Wang, Meng,Sun, Jinghao,et al. Gene co-opening network deciphers gene functional relationships[J]. MOLECULAR BIOSYSTEMS,2017,13(11):2428-2439.
APA Li, Wenran,Wang, Meng,Sun, Jinghao,Wang, Yong,&Jiang, Rui.(2017).Gene co-opening network deciphers gene functional relationships.MOLECULAR BIOSYSTEMS,13(11),2428-2439.
MLA Li, Wenran,et al."Gene co-opening network deciphers gene functional relationships".MOLECULAR BIOSYSTEMS 13.11(2017):2428-2439.
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