A guide for miRNA target prediction and analysis using web-based applications

Ana Lúcia Leitão, Marina C. Costa, Francisco J. Enguita

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

9 Citations (Scopus)


MiRNAs are small noncoding RNAs which act by binding to the 3'UTR of mRNA transcripts to exert a negative regulatory effect. The miRNA binding to its target follows rules based on the base complementarity of the seed sequence (2-9 first nucleotides of the miRNA sequence). Several algorithms have been developed to predict miRNA binding to genomic targets and its physiological consequences. This chapter will describe several practical aspects for the use of miRNA target prediction algorithms taking advantage of their web interfaces as well as how to produce integrative results in a graphical manner.

Original languageEnglish
Title of host publicationRNA Mapping: Methods and Protocols
EditorsM.L. Alvarez, M. Nourbakhsh
Place of PublicationNew York, USA
PublisherHumana Press Inc.
Number of pages13
ISBN (Electronic) 978-1-4939-1062-5
ISBN (Print)978-1-4939-1061-8
Publication statusPublished - 2014

Publication series

NameMethods in Molecular Biology
PublisherHumana Press Inc.
ISSN (Print)1064-3745


  • miRNA
  • Seed sequence
  • Target predictor
  • Web server


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