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microRNA target gene prediction using a support vector machine. Yes: No: No: webserver [131] miRror: Based on the notion of a combinatorial regulation by an ensemble of miRNAs or genes. miRror integrates predictions from a dozen of miRNA resources that are based on complementary algorithms into a unified statistical framework: Yes: No: No
microRNA.org: microRNA.org is a database for Experimentally observed microRNA expression patterns and predicted microRNA targets & target downregulation scores. database: website [27] miRGen 4.0: DIANA-miRGen v4: indexing promoters and regulators for more than 1500 microRNAs: database: website [28] MirGeneDB: MirGeneDB is a database of manually ...
psRobot is a web-based tool for plant small RNA meta-analysis. psRobot computes stem-loop small RNA prediction, which aligns user uploaded sequences to the selected genome, extracts their predicted precursors, and predicts whether the precursors can fold into stem-loop shaped secondary structure. psRobot also computes small RNA target ...
In bioinformatics, TargetScan is a web server that predicts biological targets of microRNAs (miRNAs) by searching for the presence of sites that match the seed region of each miRNA. [1] For many species, other types of sites, known as 3'-compensatory sites [1] are also identified.
database [4] ceRNAFunction: ceRNAFunction is a web server to predict lncRNA and protein functions from pan-cancer ceRNA networks using 13 functional terms (including: GO, KEGG, BIOCARTA, etc.). webserver [3] [5] Cupid: Cupid is a method for simultaneous prediction of miRNA-target interactions and their mediated competing endogenous RNA (ceRNA ...
StarBase [2] is a database for decoding miRNA-mRNA, miRNA-lncRNA, [3] miRNA-sncRNA, miRNA-circRNA, [3] miRNA-pseudogene, protein-lncRNA, [4] protein-ncRNA, protein-mRNA interactions, and ceRNA networks [5] from CLIP-Seq (HITS-CLIP, PAR-CLIP, iCLIP, CLASH) and degradome sequencing data.
Sfold is a software program developed to predict probable RNA secondary structures through structure ensemble sampling and centroid predictions [1] [2] with a focus on assessment of RNA target accessibility, [3] for major applications to the rational design of siRNAs [4] in the suppression of gene expressions, and to the identification of targets for regulatory RNAs particularly microRNAs.
queryable-rna-seq-database Formally known as the Queryable RNA-Seq Database, this system is designed to simplify the process of RNA-seq analysis by providing the ability upload the result data from RNA-Seq analysis into a database, store it, and query it in many different ways.
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