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UEA sRNA Workbench


Target Prediction Novel miRNA/Precursor Prediction Sequencing Analysis Differential Expression Analysis Known miRNA Identification


Analysis Scheme:
The UEA sRNA workbench is a simple to use, downloadable sRNA software package based on algorithms developed for the original UEA sRNA Toolkit that will perform a complete analysis of single or multiple-sample small RNA datasets from both plants and animals to identify interesting landmarks (such as detection of novel micro RNA sequences) or other tasks such as profiling small RNA expression patterns in genetic data.

Homepage: Link

Last Software Update: Feb. 22, 2016
Publication Date: May 24, 2012
Reference: [Journal] [Pubmed] [CrossRef]
Citations: 151 [via Pubmed]

Organism Specific:
  • plants
  • animals
  • viruses

    • Reference Genome Needed:
    Online/Local: /
    Installation/User Level: easy
    User Adjustability:
    User support:
    Precomputed Target Results Available For Download:
    License: free, custom licence agreement
    Target Prediction
    Algorithm Features:
  • seed match
  • 3' compensatory pairing
  • G:U pairs allowed in the seed
  • Rule-Based Complementarity Search
  • degradome seq analysis

    • Target Region: 3' UTR, CDS
    Target Annotation:
    Algorithm: PAREsnip
    NGS Data Needed:
    Metaserver:
    Sequencing Analysis
    Algorithm Features:
  • novel miRNA Identification
  • known miRNA identification
  • differential expression
  • target prediction
  • precursor prediction
  • other ncRNA identification

    • Sequencing Platform Specific: any
    PARE/CLIP-Seq: /
    Novel miRNA/Precursor Prediction
    Prediction Features:
  • sequence
  • structure

    • Algorithm: miRCat
    Novel miRNA / Precursor Analysis: Prediction
    NGS Data Needed:
    Differential Expression Analysis
    Algorithm: -
    miRNA differential expression:
    mRNA differential expression:
    NGS Data Needed:
    Known miRNA Identification
    NGS Data Needed:





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