Methods for Quality Control of Low-resolution MALDI-ToF Spectra

Michal Marczyk, Joanna Polanska

Abstract

Protein profiling of human blood serum or plasma using MALDI-ToF mass spectrometry may be used for identification of candidates for disease biomarkers. Due to many biological and technical difficulties emerging during preparation of the sample and spectra measurement quality control step is becoming important. In this study we compared different methods for finding low quality spectra based on the Pearson correlation coefficient and proposed two novel solutions. First one utilizes information about area under the measured spectrum and other incorporates modeling of signal-to-noise ratio of spectra intensity by mixture of Gaussians. Obtained results show that removing of outlying samples increases the similarity of spectra obtained within the same experimental conditions. What is more important it increases reproducibility of peak detection by decreasing the coefficient of variation of peaks intensities within a group and increasing its prevalence. This work shows that appropriate identification and removing of low quality spectra is a necessary step in analysis of mass spectrometry data and proposed tools are appropriate for quality control of MALDI-ToF data.

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Paper Citation


in Harvard Style

Marczyk M. and Polanska J. (2014). Methods for Quality Control of Low-resolution MALDI-ToF Spectra . In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2014) ISBN 978-989-758-012-3, pages 172-177. DOI: 10.5220/0004804201720177


in Bibtex Style

@conference{bioinformatics14,
author={Michal Marczyk and Joanna Polanska},
title={Methods for Quality Control of Low-resolution MALDI-ToF Spectra},
booktitle={Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2014)},
year={2014},
pages={172-177},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0004804201720177},
isbn={978-989-758-012-3},
}


in EndNote Style

TY - CONF
JO - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2014)
TI - Methods for Quality Control of Low-resolution MALDI-ToF Spectra
SN - 978-989-758-012-3
AU - Marczyk M.
AU - Polanska J.
PY - 2014
SP - 172
EP - 177
DO - 10.5220/0004804201720177