• Login
    View Item 
    •   Home
    • UA Graduate and Undergraduate Research
    • UA Theses and Dissertations
    • Dissertations
    • View Item
    •   Home
    • UA Graduate and Undergraduate Research
    • UA Theses and Dissertations
    • Dissertations
    • View Item
    JavaScript is disabled for your browser. Some features of this site may not work without it.

    Browse

    All of UA Campus RepositoryCommunitiesTitleAuthorsIssue DateSubmit DateSubjectsPublisherJournalThis CollectionTitleAuthorsIssue DateSubmit DateSubjectsPublisherJournal

    My Account

    LoginRegister

    About

    AboutUA Faculty PublicationsUA DissertationsUA Master's ThesesUA Honors ThesesUA PressUA YearbooksUA CatalogsUA Libraries

    Statistics

    Most Popular ItemsStatistics by CountryMost Popular Authors

    Proteomics Methods for Detection of Modified Peptides

    • CSV
    • RefMan
    • EndNote
    • BibTex
    • RefWorks
    Thumbnail
    Name:
    azu_etd_1083_sip1_m.pdf
    Size:
    1.495Mb
    Format:
    PDF
    Description:
    azu_etd_1083_sip1_m.pdf
    Download
    Author
    Hansen, Beau Tanana
    Issue Date
    2005
    Keywords
    proteomics
    software
    SALSA
    P-Mod
    protein modifications
    Advisor
    Liebler, Daniel C.
    Committee Chair
    Liebler, Daniel C.
    Gandolfi, A. Jay
    
    Metadata
    Show full item record
    Publisher
    The University of Arizona.
    Rights
    Copyright © is held by the author. Digital access to this material is made possible by the University Libraries, University of Arizona. Further transmission, reproduction or presentation (such as public display or performance) of protected items is prohibited except with permission of the author.
    Abstract
    The recent emergence of the field of proteomics has been driven by advances in mass spectrometry methods and instrumentation. Due to the large amount of data generated, success at peptide and protein identification is contingent on reliable software algorithms. The software programs in use at the time the work in this dissertation was carried out were well suited to the task of identifying unmodified peptides and proteins in complex mixtures. However, the existing programs were not able to reliably identify protein modifications, especially unpredicted modifications. This dissertation describes the development of two novel software algorithms that can be used to screen LC-MS-MS data files, and identify MS-MS spectra that correspond to peptides with either predicted or unpredicted modifications. The first program, SALSA, is highly flexible and uses user defined search criteria to screen data files for spectra the exhibit fragmentation patterns diagnostic of specific modifications or peptide sequences. SALSA facilitates exhaustive searches, but requires user expertise to both generate search criteria and to validate matched spectra. The second program, P-Mod, provides automated searches for spectra corresponding to peptides in a search list. P-Mod is able to identify spectra derived from either modified or unmodified peptides. All sequence-to-spectrum matches reported in the P-Mod output are assigned statistical confidence levels derived using extreme value statistics.
    Type
    text
    Electronic Dissertation
    Degree Name
    PhD
    Degree Level
    doctoral
    Degree Program
    Pharmacology & Toxicology
    Graduate College
    Degree Grantor
    University of Arizona
    Collections
    Dissertations

    entitlement

     
    The University of Arizona Libraries | 1510 E. University Blvd. | Tucson, AZ 85721-0055
    Tel 520-621-6442 | repository@u.library.arizona.edu
    DSpace software copyright © 2002-2017  DuraSpace
    Quick Guide | Contact Us | Send Feedback
    Open Repository is a service operated by 
    Atmire NV
     

    Export search results

    The export option will allow you to export the current search results of the entered query to a file. Different formats are available for download. To export the items, click on the button corresponding with the preferred download format.

    By default, clicking on the export buttons will result in a download of the allowed maximum amount of items.

    To select a subset of the search results, click "Selective Export" button and make a selection of the items you want to export. The amount of items that can be exported at once is similarly restricted as the full export.

    After making a selection, click one of the export format buttons. The amount of items that will be exported is indicated in the bubble next to export format.