The Library
Identification of related peptides through the analysis of fragment ion mass shifts
Tools
Wilhelm, Thomas and Jones, Alexandra M. (2014) Identification of related peptides through the analysis of fragment ion mass shifts. Journal of Proteome Research, Volume 13 (Number 9). pp. 4002-4011. doi:10.1021/pr500347e ISSN 1535-3893.
|
PDF
WRAP_Jones_14Wilhem_JPR %282%29.pdf - Accepted Version - Requires a PDF viewer. Download (1331Kb) | Preview |
Official URL: http://dx.doi.org/10.1021/pr500347e
Abstract
Mass spectrometry (MS) has become the method of choice to identify and quantify proteins, typically by fragmenting peptides and inferring protein identification by reference to sequence databases. Well-established programs have largely solved the problem of identifying peptides in complex mixtures. However, to prevent the search space from becoming prohibitively large most search engines need a list of expected modifications. Therefore, unexpected modifications limit both the identification of proteins and peptide-based quantification. We developed Mass Spectrometry-Peak Shift Analysis (MS-PSA) to rapidly identify related spectra in large datasets without reference to databases or specified modifications. Peptide identifications from established tools, such as MASCOT or SEQUEST, may be propagated onto MS-PSA results. Modification of a peptide alters the mass of the precursor ion and some of the fragmentation ions. MS-PSA identifies characteristic fragmentation masses from MS/MS spectra. Related spectra are identified by pattern matching of unchanged and mass-shifted fragment ions. We illustrate the use of MS-PSA with simple and complex mixtures with both high and low mass accuracy datasets. MS-PSA is not limited to the analysis of peptides but can be used for the identification of related groups of spectra in any set of fragmentation patterns.
Item Type: | Journal Article | ||||||
---|---|---|---|---|---|---|---|
Subjects: | Q Science > QD Chemistry | ||||||
Divisions: | Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- ) | ||||||
Library of Congress Subject Headings (LCSH): | Mass spectrometry -- Research, Proteomics -- Research, Protein modification | ||||||
Journal or Publication Title: | Journal of Proteome Research | ||||||
Publisher: | American Chemical Society | ||||||
ISSN: | 1535-3893 | ||||||
Official Date: | 24 July 2014 | ||||||
Dates: |
|
||||||
Volume: | Volume 13 | ||||||
Number: | Number 9 | ||||||
Page Range: | pp. 4002-4011 | ||||||
DOI: | 10.1021/pr500347e | ||||||
Status: | Peer Reviewed | ||||||
Publication Status: | Published | ||||||
Access rights to Published version: | Restricted or Subscription Access | ||||||
Date of first compliant deposit: | 27 December 2015 | ||||||
Date of first compliant Open Access: | 27 December 2015 | ||||||
Funder: | Gatsby Charitable Foundation (GCF), Biotechnology and Biological Sciences Research Council (Great Britain) (BBSRC) | ||||||
Grant number: | BB/J004529/he |
Request changes or add full text files to a record
Repository staff actions (login required)
View Item |
Downloads
Downloads per month over past year