MicroSNiPer: A web tool for prediction of SNP effects on putative microRNA targets

Maxim Barenboim, Brad J. Zoltick, Yongjian Guo, Daniel R. Weinberger

Research output: Contribution to journalArticlepeer-review

Abstract

MicroRNAs are short, approximately 22 nucleotide noncoding RNAs binding to partially complementary sites in the 3'UTR of target mRNAs. This process generally results in repression of multiple targets by a particular microRNA. There is substantial interest in methods designed to predict the microRNA targets and effect of single nucleotide polymorphisms (SNPs) on microRNA binding, given the impact of microRNA on posttranscriptional regulation and its potential relation to complex diseases. We developed a web-based application, MicroSNiPer, which predicts the impact of a SNP on putative microRNA targets. This application interrogates the 3'-untranslated region and predicts if a SNP within the target site will disrupt/eliminate or enhance/create a microRNA binding site. MicroSNiPer computes these sites and examines the effects of SNPs in real time. MicroSNiPer is a user-friendly Web-based tool. Its advantages include ease of use, flexibility, and straightforward graphical representation of the results.

Original languageEnglish (US)
Pages (from-to)1223-1232
Number of pages10
JournalHuman mutation
Volume31
Issue number11
DOIs
StatePublished - Nov 2010
Externally publishedYes

Keywords

  • 3'UTR
  • Computational prediction
  • FASTA program
  • Gene expression
  • MicroRNA
  • SNP

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

Fingerprint Dive into the research topics of 'MicroSNiPer: A web tool for prediction of SNP effects on putative microRNA targets'. Together they form a unique fingerprint.

Cite this