Jan 26, 2014

A Powerful Approach for Identification of Differentially Transcribed mRNA Isoforms

BioRxiv : the Preprint Server for Biology
Yuande Tan, Joel R Neilson

Abstract

Next generation sequencing is being increasingly used for transcriptome-wide analysis of differential gene expression. The primary goal in profiling expression is to identify genes or RNA isoforms differentially expressed between specific conditions. Yet, the next generation sequence-based count data are essentially different from the microarray data that are continuous type, therefore, the statistical methods developed well over the last decades cannot be applicable. For this reason, a variety of new statistical methods based on count data of transcript reads has been correspondingly developed. But currently the transcriptomic count data coming only from a few replicate libraries have high technical noise and small sample size bias, performances of these new methods are not desirable. We here developed a new statistical method specifically applicable to small sample count data called mBeta t-test for identifying differentially expressed gene or isoforms on the basis of the Beta t-test. The results obtained from simulated and real data showed that the mBeta t-test method significantly outperformed the existing statistical methods in all given scenarios. Findings of our method were validated by qRT-PCR experiments. The mBeta t-t...Continue Reading

  • References
  • Citations

References

  • We're still populating references for this paper, please check back later.
  • References
  • Citations

Citations

  • This paper may not have been cited yet.

Mentioned in this Paper

Genes
RNA Isoforms
Tissue-Specific Gene Expression
Gene Expression
Cell Differentiation Process
Quantitative Reverse Transcriptase PCR
Massively-Parallel Sequencing
Protein Isoforms
Base Sequence
Simulation

About this Paper

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.