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CoRegNet: reconstruction and integrated analysis of co-regulatory networks: Fig. 1.

15 Sept 2015Bioinformatics

DOI : 10.1093/bioinformatics/btv305

Authors

Rémy Nicolle, François Radvanyi, Mohamed Elati

Abstract

Abstract

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.

Availability: CoRegNet is available at http://bioconductor.org/packages/CoRegNet

Contact:  remy.nicolle@issb.genopole.fr or mohamed.elati@issb.genopole.fr

Supplementary inform  a  tion:  Supplementary data are available at Bioinformatics online.

Members

FRANCOIS RADVANYI

Directeur de recherche