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miRTarCLIP


Target Prediction Sequencing Analysis


Analysis Scheme:
From miRTarCLIP scratch, it automatically removes adaptor sequences from raw reads, filters low quality reads, reverts C to T, aligns reads to 3'UTRs, scans for read clusters, identifies high confidence miRNA target sites, and provides annotations from external databases. With multi-threading techniques and our novel C to T reversion procedure, miRTarCLIP greatly reduces the running time comparing to conventional approaches.

Homepage: Link

Last Software Update: Nov. 30, 2013
Publication Date: Jan. 21, 2013
Reference: [Journal] [Pubmed] [CrossRef]
Citations: 26 [via Pubmed]

Organism Specific:
  • human
  • mouse

    • Reference Genome Needed:
    Online/Local: /
    Installation/User Level: advanced
    User Adjustability:
    User support:
    Precomputed Target Results Available For Download:
    Target Prediction
    Algorithm Features:
  • seed match
  • conservation
  • free energy
  • target-site abundance
  • 3' compensatory pairing
  • G:U pairs allowed in the seed
  • local AU content
  • CLIP seq analysis

    • Target Region: 3'UTR
    Target Annotation:
    Algorithm: TargetScan
    NGS Data Needed:
    Metaserver:
    Sequencing Analysis
    Algorithm Features:
  • target prediction

    • Sequencing Platform Specific: Illumina
    PARE/CLIP-Seq: /





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