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Cupid is a method for simultaneous prediction of miRNA-target interactions and their mediated competing endogenous RNA (ceRNA) interactions. It is an integrative approach significantly improves on miRNA-target prediction accuracy as assessed by both mRNA and protein level measurements in breast cancer cell lines.
StarBase; Content; Description: microRNA-mRNA interaction maps from Argonaute CLIP-Seq and Degradome-Seq data.: Contact; Research center: Sun Yat-sen University: Laboratory: Key Laboratory of Gene Engineering of the Ministry of Education
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 ...
Name Description Knots [Note 1]Links References trRosettaRNA: trRosettaRNA is an algorithm for automated prediction of RNA 3D structure. It builds the RNA structure by Rosetta energy minimization, with deep learning restraints from a transformer network (RNAformer). trRosettaRNA has been validated in blind tests, including CASP15 and RNA-Puzzles, which suggests that the automated predictions ...
open-source database for molecular interactions Protein-protein and other molecular interactions String: an open source molecular interaction database to study interactions between proteins Protein-protein and other molecular interactions Human Protein Atlas: Human Protein Atlas: aims at mapping all the human proteins in cells, tissues and organs
miRTarBase [1] is a curated database of MicroRNA-Target Interactions.As a database, miRTarBase has accumulated more than fifty thousand miRNA-target interactions (MTIs), which are collected by manually surveying pertinent literature after data mining of the text systematically to filter research articles related to functional studies of miRNAs.
miRTarCLIP: A computational approach for identifying microRNA-target interactions using high-throughput CLIP and PAR-CLIP sequencing. dCLIP : dCLIP is a Perl program for discovering differential binding regions in two comparative CLIP-Seq (HITS-CLIP, PAR-CLIP or iCLIP) experiments.
It demonstrated thousands of RNA modifications located within mRNAs, regulatory ncRNAs (e.g. lncRNAs, miRNAs), miRNA target sites, RNA-Binding Proteins (RBPs) Binding sites and disease-related SNPs. database