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Scientific article
English

miRmap web: Comprehensive microRNA target prediction online

Published inNucleic acids research, vol. 41, p. W165-168
Publication date2013
Abstract

MicroRNAs (miRNAs) posttranscriptionally repress the expression of protein-coding genes. Based on the partial complementarity between miRNA and messenger RNA pairs with a mandatory so-called 'seed' sequence, many thousands of potential targets can be identified. Our open-source software library, miRmap, ranks these potential targets with a biologically meaningful criterion, the repression strength. MiRmap combines thermodynamic, evolutionary, probabilistic and sequence-based features, which cover features from TargetScan, PITA, PACMIT and miRanda. Our miRmap web application offers a user-friendly and feature-rich resource for browsing precomputed miRNA target predictions for model organisms, as well as for predicting and ranking targets for user-submitted sequences. MiRmap web integrates sorting, filtering and exporting of results from multiple queries, as well as providing programmatic access, and is available at http://mirmap.ezlab.org.

Keywords
  • 3' Untranslated Regions
  • Gene Expression Regulation
  • Internet
  • MicroRNAs/chemistry/metabolism
  • RNA, Messenger/chemistry/metabolism
  • Sequence Analysis, RNA
  • Software
  • Thermodynamics
Citation (ISO format)
VEJNAR, Charles, BLUM, Matthias, ZDOBNOV, Evgeny. miRmap web: Comprehensive microRNA target prediction online. In: Nucleic acids research, 2013, vol. 41, p. W165–168. doi: 10.1093/nar/gkt430
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Article (Published version)
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Identifiers
ISSN of the journal0305-1048
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Technical informations

Creation10/14/2013 11:43:00 AM
First validation10/14/2013 11:43:00 AM
Update time03/14/2023 8:33:55 PM
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