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Studying the Evolution of Gene Regul...

Leng, Jing.

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Studying the Evolution of Gene Regulation Using Next-Generation Sequencing: Computational Methods and Data Integration.

紀錄類型:	書目-電子資源 : Monograph/item
正題名/作者:	Studying the Evolution of Gene Regulation Using Next-Generation Sequencing: Computational Methods and Data Integration./
作者:	Leng, Jing.
面頁冊數:	136 p.
附註:	Source: Dissertation Abstracts International, Volume: 75-09(E), Section: B.
Contained By:	Dissertation Abstracts International75-09B(E).
標題:	Bioinformatics. -
電子資源:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3580748
ISBN:	9781321054057

Studying the Evolution of Gene Regulation Using Next-Generation Sequencing: Computational Methods and Data Integration.
Leng, Jing.

Studying the Evolution of Gene Regulation Using Next-Generation Sequencing: Computational Methods and Data Integration. - 136 p.

Source: Dissertation Abstracts International, Volume: 75-09(E), Section: B.

Thesis (Ph.D.)--Yale University, 2014.

This item must not be sold to any third party vendors.

Recent advances in next-generation sequencing have created new opportunities, as well as challenges, to study various aspects of gene regulation and their roles during evolution. In this dissertation, I present my thesis work on developing computational methodologies and integrative data analyses for relevant sequencing applications, in order to better understand the evolution of gene regulation -- focusing on cis-regulation of gene transcription and on alternative splicing. On the topic of cis-regulation of gene expression, I describe a project in which we used ChIP-Seq to examine the evolution of promoter and enhancer activities in the embryonic limb tissues of human, rhesus and mouse. On the topic of alternative splicing, I first present a computational tool called IQSeq that quantifies isoform expression levels using RNA-Seq data, along with its applications, especially in C. elegans. I then describe another bioinformatics pipeline LESSeq, designed for comparative analysis of RNA-Seq data at local alternative splicing events, as well as its applications to two datasets relevant to human evolution. Finally, I investigate duplications, specifically pseudogenes and paralogs, in the highly divergent species of human, worm and fly, and utilized functional genomics data to study their evolution.

ISBN: 9781321054057Subjects--Topical Terms:

553671
Bioinformatics.

Studying the Evolution of Gene Regulation Using Next-Generation Sequencing: Computational Methods and Data Integration.
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520 $a Recent advances in next-generation sequencing have created new opportunities, as well as challenges, to study various aspects of gene regulation and their roles during evolution. In this dissertation, I present my thesis work on developing computational methodologies and integrative data analyses for relevant sequencing applications, in order to better understand the evolution of gene regulation -- focusing on cis-regulation of gene transcription and on alternative splicing. On the topic of cis-regulation of gene expression, I describe a project in which we used ChIP-Seq to examine the evolution of promoter and enhancer activities in the embryonic limb tissues of human, rhesus and mouse. On the topic of alternative splicing, I first present a computational tool called IQSeq that quantifies isoform expression levels using RNA-Seq data, along with its applications, especially in C. elegans. I then describe another bioinformatics pipeline LESSeq, designed for comparative analysis of RNA-Seq data at local alternative splicing events, as well as its applications to two datasets relevant to human evolution. Finally, I investigate duplications, specifically pseudogenes and paralogs, in the highly divergent species of human, worm and fly, and utilized functional genomics data to study their evolution.
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