GemiNI /dChip-GemiNi (Gene and miRNA Network-based Integration) is a web server which is an integrative analysis of gene and miRNA expression profiles with transcription factor-miRNA feed-forward loops
mirConnX is a user-friendly web interface for inferring, displaying and parsing mRNA and microRNA (miRNA) gene regulatory networks. mirConnX combines sequence information, and computational predictions with gene expression data analysis to create a disease-specific, genome-wide regulatory network.
MITHrIL (Mirna enrIched paTHway Impact anaLysis) is an algorithm developed for the analysis of signaling pathways. It extends pathways by adding missing regulatory elements, such as microRNAs, and their interactions with genes.
SplamiR is the first method for the prediction of spliced miRNAs in plants. It takes genomic sequence and the sequence of a potential target mRNA as input. In the first phase of SplamiR, a database of complementary sequence pairs is created for the given genomic sequence. These sequence pairs might encode for RNAs folding into stem-loop structures. In the second phase, this database is searched for sequences with complementarity to the given target mRNA. For the identified sequences, in silico splice variants are generated and these are classified as to whether they might represent pre-miRNAs.
miFRame which supports the analysis of human small RNA NGS data is a web server for analysis and visualization of miRNA sequencing data in neurological disorders.
MIRcheck is a perl script designed to identify RNA sequences with secondary structures similar to plant miRNAs. It compares a potential miRNA and precursor against a set of secondary structure constraints derived from known plant miRNA precursors. The potential miRNA and precursor “pass” MIRcheck if all requirements are met, and “fail” MIRcheck if one or more is not.
::DEVELOPER
Bartel Lab at Whitehead Institute for Biomedical Research