All the tools you need to analyse your miRNAs

miRmap


Target Prediction


To evaluate the strenght of the resulting mRNA repression, the miRNA taregt predictors may employ thermodynamic, evolutionary, probabilistic, or sequence-based features. An open source software library, miRmap, for the first time comprehensively covers all four approaches using eleven predictor features, three of which are novel. Overall, target site accessibility appears to be the most predictive feature. Moreover novel feature based on PhyloP, which evaluates the significance of negative selection, is the best performing predictor in the evolutionary category.

Homepage: Link

Last Software Update: Jan. 9, 2013
Publication Date: May 28, 2013
Citations: 23 [via Pubmed]

Organism Specific:
  • human
  • mouse
  • rat
  • cow
  • chicken
  • zebrafish
  • other animals (selectable)

  • Reference Genome Needed:
    Online/Local: /
    Installation/User Level: easy (online), advanced (local)
    User Adjustability:
    User support:
    Precomputed Target Results Available For Download:
    Performance : Sensitivity: 74%, Specificity: 44%
    License: GPL
    Cross-Refferences:
  • Ensembl
  • miRBase

  • Target Prediction
    Algorithm Features:
  • seed match
  • conservation
  • free energy
  • site accessibility
  • local AU content
  • Site over-representation probability

  • Target Region: 3'UTR
    Target Annotation:
    NGS Data Needed:
    Metaserver:





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