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OMIC
10040

TargetRunningSum

A rank-based algorithm to detect miRNA regulatory activity in cancer-derived tissue samples which combines measurements of gene and miRNA expression levels and sequence-based target predictions. TargetRunningSum is designed to detect modest but coordinated changes in the expression of sequence-based predicted target genes.

Specifications

Software type:
Package
Interface:
Command line interface
Restrictions to use:
None
Input data:
TargetRunningSum requires as input genome-wide miRNA and gene expression data from the same biological samples and sequence-based predicted miRNA target sets.
Operating system:
Unix/Linux, Mac OS, Windows
Programming languages:
R
Computer skills:
Advanced
Stability:
Stable
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Documentation & support

Maintainer

  • Loredana Martignetti <loredana.martignetti at curie.fr>

Credits

Institution(s)

Institut Curie, Paris, France; INSERM, U900, Paris, France; Mines ParisTech, Fontainebleau, France

Publications

  • (Martignetti et al., 2015) Detection of miRNA regulatory effect on triple negative breast cancer transcriptome. BMC genomics.
    PMID: 26046581

Classification

Literature

  • (Akhtar et al., 2016) Bioinformatic tools for microRNA dissection. Nucleic acids research.
    PMID: 26578605

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