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Authors: Michal Marczyk and Joanna Polanska

Affiliation: Silesian University of Techonology, Poland

Keyword(s): MALDI-ToF, Protein Profiling, Quality Control.

Related Ontology Subjects/Areas/Topics: Algorithms and Software Tools ; Bioinformatics ; Biomedical Engineering ; Data Mining and Machine Learning ; Genomics and Proteomics

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 ide ntification 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. (More)

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Paper citation in several formats:
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 (BIOSTEC 2014) - BIOINFORMATICS; ISBN 978-989-758-012-3; ISSN 2184-4305, SciTePress, pages 172-177. DOI: 10.5220/0004804201720177

@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 (BIOSTEC 2014) - BIOINFORMATICS},
year={2014},
pages={172-177},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0004804201720177},
isbn={978-989-758-012-3},
issn={2184-4305},
}

TY - CONF

JO - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms (BIOSTEC 2014) - BIOINFORMATICS
TI - Methods for Quality Control of Low-resolution MALDI-ToF Spectra
SN - 978-989-758-012-3
IS - 2184-4305
AU - Marczyk, M.
AU - Polanska, J.
PY - 2014
SP - 172
EP - 177
DO - 10.5220/0004804201720177
PB - SciTePress

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