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A stringent approach to improve the quality of nitrotyrosine peptide identifications

Bart Ghesquière (UGent) , Kenny Helsens (UGent) , Joël Vandekerckhove (UGent) and Kris Gevaert (UGent)
(2011) PROTEOMICS. 11(6). p.1094-1098
Author
Organization
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Bioinformatics: from nucleotids to networks (N2N)
Abstract
Tyrosine nitration is the consequence of a complex machinery of formation and merging of oxygen and nitrogen radicals, and has been associated with both physiological pathways as well as with several human diseases. The latter turned this posttranslational protein modification into an interesting biomarker, being either a consequence of the disease or a factor contributing to the disease onset. However, the interpretation of MS and MS/MS data of peptides containing nitrotyrosine has proven to be very challenging and consequently, the risk of linking MS/MS spectra to incorrect peptide sequences exists and has been reported. Here, we discuss the causes of data misinterpretation and describe a general method to avoid mistakes of MS/MS spectrum misinterpretation. Central in our approach is the reduction of nitrotyrosine into aminotyrosine and the use of the Peptizer algorithm to inspect MS/MS quality-related assumptions.
Keywords
DISEASES, 3-NITROTYROSINE, PEROXYNITRITE, MASS-SPECTROMETRY, Peptide, PROTEIN-TYROSINE NITRATION, High-throughtput proteomics, Bioinformatics

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Citation

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Chicago
Ghesquière, Bart, Kenny Helsens, Joël Vandekerckhove, and Kris Gevaert. 2011. “A Stringent Approach to Improve the Quality of Nitrotyrosine Peptide Identifications.” Proteomics 11 (6): 1094–1098.
APA
Ghesquière, B., Helsens, K., Vandekerckhove, J., & Gevaert, K. (2011). A stringent approach to improve the quality of nitrotyrosine peptide identifications. PROTEOMICS, 11(6), 1094–1098.
Vancouver
1.
Ghesquière B, Helsens K, Vandekerckhove J, Gevaert K. A stringent approach to improve the quality of nitrotyrosine peptide identifications. PROTEOMICS. 2011;11(6):1094–8.
MLA
Ghesquière, Bart, Kenny Helsens, Joël Vandekerckhove, et al. “A Stringent Approach to Improve the Quality of Nitrotyrosine Peptide Identifications.” PROTEOMICS 11.6 (2011): 1094–1098. Print.
@article{1197754,
  abstract     = {Tyrosine nitration is the consequence of a complex machinery of formation and merging of oxygen and nitrogen radicals, and has been associated with both physiological pathways as well as with several human diseases. The latter turned this posttranslational protein modification into an interesting biomarker, being either a consequence of the disease or a factor contributing to the disease onset. However, the interpretation of MS and MS/MS data of peptides containing nitrotyrosine has proven to be very challenging and consequently, the risk of linking MS/MS spectra to incorrect peptide sequences exists and has been reported. Here, we discuss the causes of data misinterpretation and describe a general method to avoid mistakes of MS/MS spectrum misinterpretation. Central in our approach is the reduction of nitrotyrosine into aminotyrosine and the use of the Peptizer algorithm to inspect MS/MS quality-related assumptions.},
  author       = {Ghesqui{\`e}re, Bart and Helsens, Kenny and Vandekerckhove, Jo{\"e}l and Gevaert, Kris},
  issn         = {1615-9853},
  journal      = {PROTEOMICS},
  keyword      = {DISEASES,3-NITROTYROSINE,PEROXYNITRITE,MASS-SPECTROMETRY,Peptide,PROTEIN-TYROSINE NITRATION,High-throughtput proteomics,Bioinformatics},
  language     = {eng},
  number       = {6},
  pages        = {1094--1098},
  title        = {A stringent approach to improve the quality of nitrotyrosine peptide identifications},
  url          = {http://dx.doi.org/10.1002/pmic.201000526},
  volume       = {11},
  year         = {2011},
}

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