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C o R eg N et : reconstruction and integrated analysis of co-regulatory networks

Nicolle, Rémy ; Radvanyi, François ; Elati, Mohamed

Oxford University Press (OUP) ; 2015

In: Bioinformatics Vol. 31, No. 18 ( 2015-09-15), p. 3066-3068

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In: Bioinformatics, Oxford University Press (OUP), Vol. 31, No. 18 ( 2015-09-15), p. 3066-3068

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.

Type of Medium: Online Resource

ISSN: 1367-4811 , 1367-4803

URL: Article

DOI: 10.1093/bioinformatics/btv305

Language: English

Publisher: Oxford University Press (OUP)

Publication Date: 2015

detail.hit.zdb_id: 1468345-3

SSG: 12