All the tools you need to analyse your miRNAs

P-TAREF


Target Prediction


Analysis Scheme:
p-TAREF refines the process of microRNA target identification through incorporation of local interaction information for microRNA and target region in the target sequence as well as estimates the candidature of being a true microRNA target on the basis of intrinsic sequence property around the target site determined by varying dinculeotide density profile. Also by considering dinculeotide density we incorporate the nearest neighbor approach of RNA structure determination.

Homepage: Link

Last Software Update: April 10, 2015
Publication Date: Dec. 29, 2011
Citations: 8 [via Pubmed]

Organism Specific:
  • plants

  • Reference Genome Needed:
    Online/Local: /
    Installation/User Level: intermediate
    User Adjustability:
    User support:
    Precomputed Target Results Available For Download:
    Performance : Sensitivity: 90%, Specificity: 84%
    License: free
    Target Prediction
    Algorithm Features:
  • seed match
  • conservation
  • free energy
  • target-site abundance
  • machine learning
  • 3' compensatory pairing
  • G:U pairs allowed in the seed

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





    Comments & Ratings