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Software for Estimation of Human Transcriptome Isoform Expression Using RNA-Seq Data

The goal of this thesis research was to develop software to be used with RNA-Seq data for transcriptome quantification that was capable of handling multireads and quantifying isoforms on a more global level. Current software available for these purposes uses various forms of parameter alteration in order to work with multireads. Many still analyze isoforms per gene or per researcher determined clusters as well. By doing so, the effects of multireads are diminished or possibly wrongly represented. To address this issue, two programs, GWIE and ChromIE, were developed based on a simple iterative EM-like algorithm with no parameter manipulation. These programs are used to produce accurate isoform expression levels.

Identiferoai:union.ndltd.org:uno.edu/oai:scholarworks.uno.edu:td-2463
Date18 May 2012
CreatorsJohnson, Kristen
PublisherScholarWorks@UNO
Source SetsUniversity of New Orleans
Detected LanguageEnglish
Typetext
Formatapplication/pdf
SourceUniversity of New Orleans Theses and Dissertations
Rightshttp://creativecommons.org/licenses/by/3.0/

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