| ClusterID | miRNAID | miRNA | GeneID | GeneName | GeneType | TargetSite(Narrow) | narrowStart | narrowEnd | strand | TargetSite(Broad) | broadEnd | PITA | RNA22 | miRmap | microT | miRanda | PicTar | TargetScan | PITASeqStats | RNA22SeqStats | miRmapSeqStats | microTSeqStats | mirandaSeqStats | pictarSeqStats | TargetScanSeqStats | TDMDScore | AgoExpNum | CleaveExpNum | AGOStats | AGOclipNum | phyloP | Pan-Cancer | lineID |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ClusterID | miRNAID | miRNA | GeneID | GeneName | GeneType | TargetSite(Narrow) | narrowStart | narrowEnd | strand | TargetSite(Broad) | broadEnd | PITA | RNA22 | miRmap | microT | miRanda | PicTar | TargetScan | PITASeqStats | RNA22SeqStats | miRmapSeqStats | microTSeqStats | mirandaSeqStats | pictarSeqStats | TargetScanSeqStats | TDMDScore | AgoExpNum | CleaveExpNum | AGOStats | AGOclipNum | phyloP | Pan-Cancer | lineID |
Here, we presented the miRNA-target interactions by intersecting the predicting target sites of miRNAs with binding sites of Ago protein, which were derived from CLIP-seq data.
We also introduced a new algorithm called TDMDScore to systematically scan the miRNA-target interactions and evaluated the potential interactions that triggered target-directed microRNA degradation (TDMD).
A higher TDMDScore indicates that the miRNA-target is more likely to trigger the TDMD.
You can search the interactions of miRNA-target by selecting one/multiple target-predicting programs (PITA, RNA22, miRmap, DIANA-microT, miRanda, PicTar and TargetScan).
Select the miRNA parameter to browse the miRNA-mRNA interactions (selected miRNA or all miRNAs).
Select the target parameter to browse the miRNA-mRNA interactions (selected target gene or all target genes).
Refine results with the CLIP Data parameter (the number of supported AGO-CLIP-seq experiments).
Refine results with the CLIP Region Type parameter (the type of supported RBP-binding events identified by rbsSeeker: peak or individual cross-linking site).
Refine results with the CLIP Region P-value parameter (the minimum significance of supported RBP-binding events identified by rbsSeeker).
Refine results with the CLIP-seq Type parameter (the supported CLIP-seq methodologies: e.g., HITS-CLIP, iCLIP, PAR-CLIP or eCLIP).
Refine results with the Degradome Data parameter (the number of supported degradome-seq experiments, the default value is 0. This parameter is useful for investigation of miRNA-mediated cleavage events).
Refine results with the Program Number parameter (the number of programs that supports the miRNA-mRNA interactions).
Refine results with the Predicted Program parameter (which program was used for predicting the miRNA-mRNA interaction).
Explore the interaction of miRNA-mRNA supported by Pan-Cancer analysis (the number of cancer types with significant co-expression patterns of the miRNA-target interaction).
Users can filter the results by searching in the table. The searchable columns are allowed using comparison operators like ">=", "<=", ">", "<" and "=". The ">=" is set by default.