| mimiRNA provide reliable expression profiles and to discover functional relations between miRNAs and mRNAs such as miRNA targets. mimiRNA combines TargetScan or Miranda predictions with the expression profile results. |
| Combining TargetScan or Miranda predictions with the expression profile results |
| miRNA expression |
| ExprTarget integrate some of the most frequently used miRNA target prediction methods as well as the expression datasets on HapMap cell lines generated in our laboratory. This database conducted an analysis of its performance using the database of experimentally supported miRNA targets as gold standard and using cross-validation. This approach greatly improves miRNA target prediction relative to the existing prediction algorithms. |
| Integrating Miranda, PicTar and TargetScan miRNA target prediction methods with the mRNA and miRNA expression datasets from HapMap cell lines |
| The HOCTAR (Host gene Opposite Correlated TARgets) tool is a new procedure to improve the prediction of miRNA targets. The HOCTAR procedure is based on the integration of expression profiling and sequence-based miRNA target recognition softwares. HOCTAR re-analyzes all miRNA target predictions generated by softwares such as miRanda, TargetScan and PicTar. |
| Integrating Miranda, TargetScan and PicTar predictions with expression results |
| Composite target prediction |
| MiRonTop is an online tool that integrates DNA microarrays or high-throughput sequencing data to identify the potential implication of miRNAs on a specific biological system. It allows a rapid characterization of the most pertinent mRNA targets according to several existing miRNA target prediction approaches. It usesTargetScan v7.0 and miRTarBase v6.0 algorithms. |
| Integrating next generation sequencing data and several miRNA target prediction approaches. |
| MMIAs is microRNA and mRNA integrated analysis that integrates microRNA and mRNA expression data with predicted microRNA target information for analyzing microRNA-associated phenotypes and biological functions. To assign biological relevance to the integrated microRNA/mRNA profiles, MMIA uses exhaustive human genome coverage, including various disease-associated genes as well as conventional canonical pathways and Gene Ontology. |
| Combining expression profiles and TargetScan, PicTar and PITA miRNA predictions |
| miRNA roles in diseases |
| TaLasso was used on two public datasets that have paired expression levels of human miRNAs and mRNAs. The top ranked interactions recovered by TaLasso are especially enriched (more than using any other algorithm) in experimentally validated targets. The functions of the genes with mRNA transcripts in the top-ranked interactions are meaningful. |
| Combines the information of sequence databases with mRNA and miRNA expression to quantify the down-regulation between miRNAs and their putative targets |
