MicroRNA target databases | Non-coding transcript data analysis
MicroRNAs (miRNAs) are a class of endogenous non-coding RNAs with ∼22 nucleotides (nt) that play important roles at the post-transcriptional level in animals and plants. The mechanistic model of miRNAs regulates gene expression either by repressing mRNA translation or by inducing mRNA degradation by partial complementarity binding with target sequences.
Collects computationally predicted targets of human and mouse miRNAs from four most widely used miRNA target prediction databases. CSmiRTar implements (i) a tissue filter for users to search the miRNA targets expressed in a specific tissue, (ii) a disease filter for users to search the miRNA targets related to a specific disease, and (iii) a database filter for users to search the miRNA targets supported by multiple existing miRNA target prediction databases.
Assists in finding information about relationships between microRNAs, protein and mRNA. IMOTA uses charts as filters. It focuses on multi-omics-tissue. This database can extract the tissues where a specific miRNA, gene or protein is expressed. It provides about 1997 miRNAs in more than 60 human tissues; mRNA data for a subset of 32 tissues and 45 cell types and proteins that occur in the human body and covers 48 human tissues.
A resource for animal miRNA–target interactions. miRecords consists of two components. The validated targets component is a large, high-quality database of experimentally validated miRNA targets resulting from meticulous manual literature curation. As the largest known collection of experimental validated miRNA targets, it emphasizes systematic and structured documentation of experimental support of miRNA–target interactions. This database not only serves the experimental researchers by providing the lists of confirmed targets of the miRNAs of their interest, but also provides a large and high-quality dataset that will facilitate the development of the next-generation miRNA target prediction programs. The Predicted Targets component of miRecords is an integration of predicted miRNA targets produced by 11 established miRNA target prediction programs. As the most complete integration of predicted miRNA targets, it is expected to provide considerable help to researchers investigating new miRNA targets.
Serves for rainbow trout specific miRNA-mRNA target determinations. MicroTrout is a resource useful for functional miRNA research in rainbow trout. It can be used to solve emerging research questions regarding miRNA function in the rainbow trout model. This database provides a search engine that specifically recognizes miRNA - 3’UTR target relationships and can serve in comparative physiology and toxicology.
Identifies mixed transcriptional and post-transcriptional deregulated circuits in primary myelofibrosis (PMF). PMF Network model consists of an informative, composite and interactive data-driven picture of pathways and circuits deregulated in PMF. It contains over 180 non-redundant genes and miRNAs and their interactions that represent the compendium of the deregulated pathway-guided interactions.
Permits to identify miRNAs target of Arabidopsis thaliana by integrating prediction scores from several algorithms used as a feature vector of miRNA-target interactions. At_miRNA determines miRNA-target interactions through sequence-based and energy-based information integration, with the help of machine learning classifiers. This approach uses three target predictors: RNAHybrid, miRanda and PITA to generate prediction scores.
Assists in identifying potential miRNA target sites. MiREN is an application that permits to build and score three-dimensional models of the ternary complex formed by the Argonaute protein (AGO), a miRNA and 22 nt of a target mRNA that putatively interacts with it. It can be used to filter the predictions obtained by PITA, a method that collects predicted microRNA targets. This method is not suitable for transcriptome-wide screenings.