A comparison of microRNA sequencing reproducibility and noise reduction using mirVana and TRIzol isolation methods

Yan Guo, Amma Bosompem, Xue Zhong, Travis Clark, Yu Shyr, Annette S. Kim

Research output: Contribution to journalArticlepeer-review

7 Citations (Scopus)

Abstract

MicroRNAseq (miRNAseq) is a form of RNAseq technology that has become an increasingly popular alternative to miRNA expression profiling. Unlike messenger RNA (mRNA), miRNA extraction can be difficult, and sequencing such small RNA can also be problematic. We designed a study to test the reproducibility of miRNAseq technology and the performance of the two popular miRNA isolation methods, mirVana and TRIzol, by sequencing replicated samples using microRNA isolated with each kit. Through careful analysis of our data, we found excellent repeatability of miRNAseq technology. The mirVana method performed better than TRIzol in terms of useful reads sequenced, number of miRNA identified, and reproducibility. Finally, we identified a baseline noise level for miRNAseq technology; this baseline noise level can be used as a filter in future miRNAseq studies.

Original languageEnglish
Pages (from-to)102-112
Number of pages11
JournalInternational Journal of Computational Biology and Drug Design
Volume7
Issue number2-3
DOIs
Publication statusPublished - 2014

All Science Journal Classification (ASJC) codes

  • Drug Discovery
  • Computer Science Applications

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