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CoRegNet：共调控网络的重建与综合分析

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

作者信息

Nicolle Rémy, Radvanyi François, Elati Mohamed

机构信息

iSSB, CNRS, University of Evry, Genopole, 91030 Evry Cedex, France, Institut Curie, PSL Research University, 75248 Cedex 05, France and CNRS UMR144, 75248 Cedex 05, France iSSB, CNRS, University of Evry, Genopole, 91030 Evry Cedex, France, Institut Curie, PSL Research University, 75248 Cedex 05, France and CNRS UMR144, 75248 Cedex 05, France iSSB, CNRS, University of Evry, Genopole, 91030 Evry Cedex, France, Institut Curie, PSL Research University, 75248 Cedex 05, France and CNRS UMR144, 75248 Cedex 05, France.

iSSB, CNRS, University of Evry, Genopole, 91030 Evry Cedex, France, Institut Curie, PSL Research University, 75248 Cedex 05, France and CNRS UMR144, 75248 Cedex 05, France iSSB, CNRS, University of Evry, Genopole, 91030 Evry Cedex, France, Institut Curie, PSL Research University, 75248 Cedex 05, France and CNRS UMR144, 75248 Cedex 05, France.

出版信息

Bioinformatics. 2015 Sep 15;31(18):3066-8. doi: 10.1093/bioinformatics/btv305. Epub 2015 May 14.

DOI:10.1093/bioinformatics/btv305
PMID:25979476
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC4565029/
Abstract

UNLABELLED

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 INFORMATION

Supplementary data are available at Bioinformatics online.

摘要

未标注

CoRegNet是一个R/Bioconductor软件包，用于通过突出共调节因子集来分析大规模转录组数据。基于转录组数据集，CoRegNet可用于：重建大规模共调节网络、整合转录因子结合位点和ChIP数据等调控证据、估计样本特异性调节因子活性、识别协同转录因子以及通过交互式可视化工具分析活性调节因子的样本特异性组合。在本研究中，CoRegNet用于识别膀胱癌的驱动调节因子。

可用性

CoRegNet可在http://bioconductor.org/packages/CoRegNet获取。

联系方式

remy.nicolle@issb.genopole.fr或mohamed.elati@issb.genopole.fr

补充信息

补充数据可在《生物信息学》在线获取。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/138b/4565029/ea309e48a907/btv305f1p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/138b/4565029/ea309e48a907/btv305f1p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/138b/4565029/ea309e48a907/btv305f1p.jpg

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