Proteogenomics Tools and Their Applications in the Molecular Characterization of Cancer
出版項
2021
說明
1 online resource (189 pages)
文字
text
無媒介
computer
成冊
online resource
附註
Source: Dissertations Abstracts International, Volume: 83-02, Section: B
Advisor: Ruggles, Kelly V.;Fenyo, David
Thesis (Ph.D.)--New York University, 2021
Includes bibliographical references
Although cancer is commonly thought of as a disease of the genome, the genomic aberrations that give rise to cancerous tissue are only a small part of the cancer pathology. To draw a complete picture of the molecular characteristics that define cancer, it is vital to thoroughly investigate the proteome as well. Unfortunately, describing the proteome is a much more difficult task, requiring customized algorithms and software tools that take advantage of not only proteomics technologies but also the less expensive and more advanced genomics and transcriptomics technologies. In the following pages, I present two software tools for the proteogenomic analysis of cancerous tissue: Black Sheep, a software package for differential extreme value analysis that is particularly well suited to the challenges of phosphoproteomics; and QUILTS, a sample-specific variant database generation tool that enables the detection of variant peptides in tandem mass spectrometry output. I show how these and other proteogenomics tools can be applied to solve urgent clinical problems; first, by detailing the work my colleagues and I undertook to produce a comprehensive molecular characterization of endometrial cancer; and second, by describing our analysis of the pan-cancer variant proteome
Electronic reproduction. Ann Arbor, Mich. : ProQuest, 2021
