miRWalk: An online resource for prediction of microRNA binding sites

• Published in: PloS one Vol. 13; no. 10; p. e0206239
• Main Authors: Sticht, Carsten, De La Torre, Carolina, Parveen, Alisha, Gretz, Norbert
• Format: Journal Article
• Language: English
• Published: United States Public Library of Science 18-10-2018; Public Library of Science (PLoS)
• Subjects: 3' Untranslated Regions; 5' Untranslated Regions; Accuracy; Algorithms; Analysis; Animals; Binding Sites; Bioinformatics; Biology and life sciences; Cattle; Computer and Information Sciences; Databases, Genetic; Dogs; Gene expression; Gene Regulatory Networks; Genomes; Genomics; Humans; Internet; Internet resources; Medical research; Mice; MicroRNA; MicroRNAs; MicroRNAs - chemistry; MicroRNAs - metabolism; miRNA; Modular design; Open source software; Physical Sciences; Physiological aspects; Predictions; Rats; Research and Analysis Methods; Ribonucleic acid; RNA; RNA, Messenger - chemistry; RNA, Messenger - metabolism; Source code; Transcription; Germany
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0206239

miRWalk is an open-source platform providing an intuitive interface that generates predicted and validated miRNA-binding sites of known genes of human, mouse, rat, dog and cow. The core of miRWalk is the miRNA target site prediction with the random-forest-based approach software TarPmiR searching the complete transcript sequence including the 5'-UTR, CDS and 3'-UTR. Moreover, it integrates results other databases with predicted and validated miRNA-target interactions. The focus is set on a modular design and extensibility as well as a fast update cycle. The database is available using Python, MySQL and HTML/Javascript Database URL: http://mirwalk.umm.uni-heidelberg.de.