All the tools you need to analyse your miRNAs


Target Prediction Sequencing Analysis Target Functional Analysis Differential Expression Analysis IsomiRs Identification

Analysis Scheme:
somiR2Function allows for the high-throughput detection of plant isomiRs from any miRNA-seq profiling study. isomiR2Function not only allows for the identification of the templated and non-templated 5′- isomiRs and 3′- isomiRs but also allows for the expression quantification. Since, the prediction of biologically relevant target is an important criterion for the identification of isomiRs and their targets - isomiR2Function identifies target as well. Following target prediction, it allows for functional enrichment of the identified targets. In parallel, isomiR2Function provides support for the visualization of read mapping on corresponding precursor sequences.

Homepage: Link

Last Software Update: Feb. 15, 2017
Publication Date: March 21, 2017
Citations: 9 [via Pubmed]

Organism Specific:
  • plants

  • 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
  • G:U pairs allowed in the seed
  • degradome seq analysis

  • Target Region: any
    Target Annotation:
    Algorithm: TargetFinder or CleaveLand4
    NGS Data Needed:
    Sequencing Analysis
    Algorithm Features:
  • differential expression
  • target prediction
  • target annotation
  • isomiRs identyfication

  • Sequencing Platform Specific: Illumina
    PARE/CLIP-Seq: /
    Differential Expression Analysis
    Algorithm: DESeq or EBSeq
    miRNA differential expression:
    mRNA differential expression:
    NGS Data Needed:
    Target Functional Analysis
    Algorithm: TopGO
    Analysis Features:
  • GO Terms
  • NGS Data Needed:
    Target Prediction Data Needed:
    IsomiRs Identification
    NGS Data Needed:

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