ROMA – Calculation of Gene Set Activities from Oomics data

ROMA

:: DESCRIPTION

ROMA (Representation and quantification Of Module Activities) is a software package written in Java for the quantification and representation of biological module activity using gene expression or other omics data.

::DEVELOPER

Computational Systems Biology of Cancer group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows
  • Java

:: DOWNLOAD

ROMA

:: MORE INFORMATION

Citation:

Martignetti L, Calzone L, Bonnet E, Barillot E, Zinovyev A.
ROMA: Representation and Quantification of Module Activity from Target Expression Data.
Front Genet. 2016 Feb 19;7:18. doi: 10.3389/fgene.2016.00018. PMID: 26925094; PMCID: PMC4760130.

ActMiR – Activity of miRNAs

ActMiR

:: DESCRIPTION

ActMiR is a computational approach to explicitly infer the activity of miRNAs based on the change in the expression levels of target genes.

::DEVELOPER

Zhu lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows
  • R

:: DOWNLOAD

  ActMiR 

:: MORE INFORMATION

Citation:

Lee E, Ito K, Zhao Y, Schadt EE, Irie HY, Zhu J.
Inferred miRNA activity identifies miRNA-mediated regulatory networks underlying multiple cancers.
Bioinformatics. 2016 Jan 1;32(1):96-105. doi: 10.1093/bioinformatics/btv531. Epub 2015 Sep 10. PMID: 26358730; PMCID: PMC5006235.

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