microrna target prediction

TargetScan7.1 Mouse Released

by Christoph on February 3, 2016

in Web Based Tools

TargetScan Mouse Release 7.1 - Prediction of miRNA targets in mouseThe TargetScan team is excited to announce the official release of the next generation of their microRNA (miRNA) target prediction resource: TargetScan7.1 for the mouse species which can be accessed at http://www.targetscan.org/mmu_71/ . It is a follow-up resource to their paper on major improvements to miRNA target prediction algorithms, published in August 2015 (http://elifesciences.org/content/4/e05005/), and a follow-up to the previously released TargetScan7.0 for the Human. This latest release features

  • heavily revised 3′ UTR annotations,
  • updated evolutionary information encompassing an expanded repertoire of mammalian species,
  • improvements in the usage of features predictive of effective miRNA target sites,
  • improved miRNA conservation classifications for miRNA families,
  • enhanced user interface that simplifies data accessibility.

The authors are looking forward to hear any feedback regarding the website as they are “determined to further improve the resource for the miRNA community.

 

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EXPANDER (EXpression Analyzer and DisplayER) is a java-based tool for analysis of gene expression data[1].

  • data preprocessing and normalization
  • identification of differential genes
  • clustering and biclustering;
  • down-stream enrichment analyses of:
    • GO functional categories
    • TF binding sites in promoter regions
    • microRNA sites in 3′-UTRs
    • chromosomal locations
  • network-based analysis of the expression data

Expander (EXPression ANalyzer and DisplayER) is an integrated software platform for the analysis of gene expression data, which is freely available for academic use. It is designed to support all the stages of microarray data analysis, from raw data normalization to inference of transcriptional regulatory networks.

microRNA target predictions for Human, Mouse, Fly, and C. elegans

  1. Ulitsky I, Maron-Katz A, Shavit S, Sagir D, Linhart C, Elkon R, Tanay A, Sharan R, Shiloh Y, Shamir R. (2010) Expander: from expression microarrays to networks and functions. Nat Protoc 5(2), 303-22. [abstract]

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