Estimating the expression of transcript isoforms from mRNA-seq via nonnegative least squares

Hyunsoo Kim*, Yingtao Bi, Ramana V. Davuluri

*Corresponding author for this work

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

2 Scopus citations

Abstract

mRNA-Seq is an emerging massive parallel sequencing based technology for identification and quantification of gene transcripts. Although gene level expression can easily be estimated from mRNA-Seq data, estimating the isoform level expression poses serious problems, and appropriate methods are required. In this paper, we introduce a mathematical method to estimate transcript isoform concentrations, i.e. transcript isoform expression estimation via nonnegative least squares (TIEE/NLS).

Original languageEnglish (US)
Title of host publication10th IEEE International Conference on Bioinformatics and Bioengineering 2010, BIBE 2010
Pages296-297
Number of pages2
DOIs
StatePublished - Sep 6 2010
Event10th IEEE International Conference on Bioinformatics and Bioengineering, BIBE-2010 - Philadelphia, PA, United States
Duration: May 31 2010Jun 3 2010

Other

Other10th IEEE International Conference on Bioinformatics and Bioengineering, BIBE-2010
CountryUnited States
CityPhiladelphia, PA
Period5/31/106/3/10

Keywords

  • Component
  • mRNA-Seq
  • Nonnegative least squares
  • Transcript isoform
  • Transcript isoform expression estimation

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Informatics

Fingerprint Dive into the research topics of 'Estimating the expression of transcript isoforms from mRNA-seq via nonnegative least squares'. Together they form a unique fingerprint.

Cite this