Identification of differential alternative splicing events with an adjusted beta-distribution model

Kan Liu, Qian Du, Guodong Ren, Bin Yu, Chi Zhang

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

1 Scopus citations

Abstract

High-throughput next generation sequencing of cDNA, i.e. RNA-Seq, presents an unprecedented resource for characterizing the alternative splicing (AS) in complex eukaryotic transcriptomes. Accumulating evidences indicate that AS is developmentally regulated, but the precise responses of AS event to development is not well understood. Here, we describe a new method, based on an adjusted beta-distribution model, for detection of differential AS patterns from RNA-Seq data comparisons. Applying our method to two datasets of RNA-Seq for zika infection in human cells and pollen tissue in Arabidopsis thaliana, we identified 1,871 differentially AS events for 1,394 protein-coding genes in human and 496 differentially AS events for 358 protein-coding genes in Arabidopsis, respectively. The results included known AS events reported before as well as novel events, which demonstrate that the biological replicates are important in the effective identification using ß-distribution. With a high accurate rate, our new method in differential AS identification will facilitate future investigation on transcriptomic annotation.

Original languageEnglish (US)
Title of host publication2017 IEEE International Conference on Electro Information Technology, EIT 2017
PublisherIEEE Computer Society
Pages276-279
Number of pages4
ISBN (Electronic)9781509047673
DOIs
StatePublished - Sep 27 2017
Event2017 IEEE International Conference on Electro Information Technology, EIT 2017 - Lincoln, United States
Duration: May 14 2017May 17 2017

Publication series

NameIEEE International Conference on Electro Information Technology
ISSN (Print)2154-0357
ISSN (Electronic)2154-0373

Other

Other2017 IEEE International Conference on Electro Information Technology, EIT 2017
CountryUnited States
CityLincoln
Period5/14/175/17/17

Keywords

  • RNA-seq
  • alternative splicing (AS)
  • next generation sequencing

ASJC Scopus subject areas

  • Computer Science Applications
  • Information Systems
  • Control and Systems Engineering
  • Electrical and Electronic Engineering

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    Liu, K., Du, Q., Ren, G., Yu, B., & Zhang, C. (2017). Identification of differential alternative splicing events with an adjusted beta-distribution model. In 2017 IEEE International Conference on Electro Information Technology, EIT 2017 (pp. 276-279). [8053369] (IEEE International Conference on Electro Information Technology). IEEE Computer Society. https://doi.org/10.1109/EIT.2017.8053369