CoRegNet: reconstruction and integrated analysis of co-regulatory networks | Zendy

Rémy Nicolle | Zendy; François Radvanyi | Zendy; Mohamed Elati | Zendy

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CoRegNet: reconstruction and integrated analysis of co-regulatory networks

Author(s) -

Rémy Nicolle,

François Radvanyi,

Mohamed Elati

Publication year - 2015

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btv305

Subject(s) - bioconductor , computational biology , transcription factor , r package , transcriptome , computer science , visualization , regulator , biology , data mining , gene expression , gene , genetics , computational science

CoRegNet is an R/Bioconductor package to analyze large-scale transcriptomic data by highlighting sets of co-regulators. Based on a transcriptomic dataset, CoRegNet can be used to: reconstruct a large-scale co-regulatory network, integrate regulation evidences such as transcription factor binding sites and ChIP data, estimate sample-specific regulator activity, identify cooperative transcription factors and analyze the sample-specific combinations of active regulators through an interactive visualization tool. In this study CoRegNet was used to identify driver regulators of bladder cancer.

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