miRWalk: An online resource for prediction of microRNA binding sites

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 th...

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Bibliographic Details
Published inPloS one Vol. 13; no. 10; p. e0206239
Main Authors Sticht, Carsten, De La Torre, Carolina, Parveen, Alisha, Gretz, Norbert
Format Journal Article
LanguageEnglish
Published United States Public Library of Science 18.10.2018
Public Library of Science (PLoS)
Subjects
3' Untranslated regions
Accuracy
Algorithms
Analysis
Binding sites
Bioinformatics
Biology and life sciences
Computer and Information Sciences
Gene expression
Genomes
Genomics
Internet resources
Medical research
MicroRNA
MicroRNAs
miRNA
Modular design
Open source software
Physical Sciences
Physiological aspects
Predictions
Research and Analysis Methods
Ribonucleic acid
RNA
Source code
Transcription
Germany
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Summary: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.
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Competing Interests: The authors have declared that no competing interests exist.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0206239