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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 ...
Web server which predicts targets for miRNAs and provides functional information on the predicted miRNA:target gene interaction from various online biological resources. Updates enable the association of miRNAs to diseases through bibliographic analysis and connection to the UCSC genome browser. Updates include sophisticated workflows.
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.
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
Rna22 is a pattern-based algorithm for the discovery of microRNA target sites and the corresponding heteroduplexes. [1]The algorithm is conceptually distinct from other methods for predicting microRNA:mRNA heteroduplexes in that it does not use experimentally validated heteroduplexes for training, instead relying only on the sequences of known mature miRNAs that are found in the public databases.
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.
RSVP RSVP is a software package for prediction of alternative isoforms of protein-coding genes, based on both genomic DNA evidence and aligned RNA-seq reads. The method is based on the use of ORF graphs, which are more general than the splice graphs used in traditional transcript assembly.