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iRegulon: From a Gene List to a Gene Regulatory Network

iRegulon: From a Gene List to a Gene Regulatory Network

Identifying master regulators of biological processes and mapping their downstream gene networks are key challenges in systems biology. Researchers at the KU Leuven Center for Human Genetics developed a computational method, called iRegulon, to reverse-engineer the transcriptional regulatory network underlying ...

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A Flexible Protocol for Targeted Gene Co-expression Network Analysis

A Flexible Protocol for Targeted Gene Co-expression Network Analysis

The inference of gene co-expression networks is a valuable resource for novel hypotheses in experimental research. Routine high-throughput microarray transcript profiling experiments and the rapid development of next-generation sequencing (NGS) technologies generate a large amount of publicly available data, enabling ...

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cGRNB – combinatorial Gene Regulatory Networks Builder

cGRNB – combinatorial Gene Regulatory Networks Builder

We are witnessing rapid progress in the development of methodologies for building the combinatorial gene regulatory networks involving both TFs (Transcription Factors) and miRNAs (microRNAs). There are a few tools available to do these jobs but most of them are ...

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New RNA-Seq Pathway and Gene-set Analysis Workflows in R/Bioconductor

New RNA-Seq Pathway and Gene-set Analysis Workflows in R/Bioconductor

The gage package (2.12.0) now includes a new tutorial, “RNA-Seq Data Pathway and Gene-set Analysis Workflows“. Note you need to update to current release versions of R(3.0.2)/ Bioconductor(2.13) to use all the features. Please check it out: http://bioconductor.org/packages/rel…html/gage.html http://bioconductor.org/packages/rel…eqWorkflow.pdf We ...

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