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Bioinformatic strategies for unambiguous identification of prostate specific antigen in clinical samples

Végvári, Ákos LU ; Rezeli, Melinda LU ; Häkkinen, Jari LU ; Sihlbom, Carina; Carlsohn, Elisabet; Malm, Johan LU ; Lilja, Hans LU ; Laurell, Thomas LU and Marko-Varga, György LU (2011) In Journal of Proteomics 75(1). p.202-210
Abstract
Prostate specific antigen (PSA), as a widely used clinical biomarker in prostate cancer

diagnostics, exists in multiple molecular forms. However, all of these forms might not be recognized in

a given sample by the standard immunoassays. Therefore, we have investigated PSA isoforms

separated by size using mass spectrometric analyses. The objective of these developments was to

identify and specify the various forms of PSA. To optimize successful identification of different PSA

forms, we have developed a bioinformatic strategy, consisting of high resolution MALDI-MS PMF and

sequencing MS/MS data searches. To improve sequence-based identification, the recently introduced

Proteios... (More)
Prostate specific antigen (PSA), as a widely used clinical biomarker in prostate cancer

diagnostics, exists in multiple molecular forms. However, all of these forms might not be recognized in

a given sample by the standard immunoassays. Therefore, we have investigated PSA isoforms

separated by size using mass spectrometric analyses. The objective of these developments was to

identify and specify the various forms of PSA. To optimize successful identification of different PSA

forms, we have developed a bioinformatic strategy, consisting of high resolution MALDI-MS PMF and

sequencing MS/MS data searches. To improve sequence-based identification, the recently introduced

Proteios software environment was employed, allowing the combination of multiple database search

engines in an automated manner.

We could unambiguously identify PSA in clinical samples by all detectable tryptic peptides, which were

found to be common in several isoforms. (Less)
Please use this url to cite or link to this publication:
author
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
prostate specific antigen, isoforms, MALDI LTQ Orbitrap XL, ESI-LTQ FT-ICR, Proteios software environment, kallikrein-2
in
Journal of Proteomics
volume
75
issue
1
pages
202 - 210
publisher
Elsevier
external identifiers
  • wos:000298710400020
  • scopus:84858734563
ISSN
1874-3919
DOI
10.1016/j.jprot.2011.06.008
language
English
LU publication?
yes
id
8d41e980-0e1c-469a-b852-4c75d35fffc2 (old id 1966822)
date added to LUP
2011-07-25 07:34:54
date last changed
2017-01-01 04:09:53
@article{8d41e980-0e1c-469a-b852-4c75d35fffc2,
  abstract     = {Prostate specific antigen (PSA), as a widely used clinical biomarker in prostate cancer<br/><br>
diagnostics, exists in multiple molecular forms. However, all of these forms might not be recognized in<br/><br>
a given sample by the standard immunoassays. Therefore, we have investigated PSA isoforms<br/><br>
separated by size using mass spectrometric analyses. The objective of these developments was to<br/><br>
identify and specify the various forms of PSA. To optimize successful identification of different PSA<br/><br>
forms, we have developed a bioinformatic strategy, consisting of high resolution MALDI-MS PMF and<br/><br>
sequencing MS/MS data searches. To improve sequence-based identification, the recently introduced<br/><br>
Proteios software environment was employed, allowing the combination of multiple database search<br/><br>
engines in an automated manner.<br/><br>
We could unambiguously identify PSA in clinical samples by all detectable tryptic peptides, which were<br/><br>
found to be common in several isoforms.},
  author       = {Végvári, Ákos and Rezeli, Melinda and Häkkinen, Jari and Sihlbom, Carina and Carlsohn, Elisabet and Malm, Johan and Lilja, Hans and Laurell, Thomas and Marko-Varga, György},
  issn         = {1874-3919},
  keyword      = {prostate specific antigen,isoforms,MALDI LTQ Orbitrap XL,ESI-LTQ FT-ICR,Proteios software environment,kallikrein-2},
  language     = {eng},
  number       = {1},
  pages        = {202--210},
  publisher    = {Elsevier},
  series       = {Journal of Proteomics},
  title        = {Bioinformatic strategies for unambiguous identification of prostate specific antigen in clinical samples},
  url          = {http://dx.doi.org/10.1016/j.jprot.2011.06.008},
  volume       = {75},
  year         = {2011},
}