Data mining of mRNA-Seq and small RNA-Seq data to find microRNA targets

Hyunsoo Kim*, Ramana V. Davuluri

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

The computational identification of miRNA target sites in an mRNA transcript is a challenging problem. In this paper, we describe an integrative approach to efficiently predict the miRNA:mRNA interactions by data-mining of massive parallel sequencing based data, such as mRNA-Seq and small RNA-Seq, and transcript isoform specific miRNA binding scores of miRanda algorithm.

Original languageEnglish (US)
Title of host publication2010 ACM International Conference on Bioinformatics and Computational Biology, ACM-BCB 2010
Pages499-501
Number of pages3
DOIs
StatePublished - Oct 25 2010
Event2010 ACM International Conference on Bioinformatics and Computational Biology, ACM-BCB 2010 - Niagara Falls, NY, United States
Duration: Aug 2 2010Aug 4 2010

Other

Other2010 ACM International Conference on Bioinformatics and Computational Biology, ACM-BCB 2010
CountryUnited States
CityNiagara Falls, NY
Period8/2/108/4/10

Keywords

  • Human breast cancer
  • MCF-7
  • MicroRNA
  • MiRNA
  • RNA-Seq
  • Small RNA-Seq
  • Transcript isoform specific miRNA binding

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Information Management

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