A computational platform for MALDI-TOF mass spectrometry data: application to serum and plasma samples

Journal of Proteomics
Dante MantiniAndrea Urbani

Abstract

Mass spectrometry (MS) is becoming the gold standard for biomarker discovery. Several MS-based bioinformatics methods have been proposed for this application, but the divergence of the findings by different research groups on the same MS data suggests that the definition of a reliable method has not been achieved yet. In this work, we propose an integrated software platform, MASCAP, intended for comparative biomarker detection from MALDI-TOF MS data. MASCAP integrates denoising and feature extraction algorithms, which have already shown to provide consistent peaks across mass spectra; furthermore, it relies on statistical analysis and graphical tools to compare the results between groups. The effectiveness in mass spectrum processing is demonstrated using MALDI-TOF data, as well as SELDI-TOF data. The usefulness in detecting potential protein biomarkers is shown comparing MALDI-TOF mass spectra collected from serum and plasma samples belonging to the same clinical population. The analysis approach implemented in MASCAP may simplify biomarker detection, by assisting the recognition of proteomic expression signatures of the disease. A MATLAB implementation of the software and the data used for its validation are available at http...Continue Reading

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Citations

Mar 28, 2012·Vector Borne and Zoonotic Diseases·Jiping LiJun Qian
Dec 4, 2012·International Journal of Molecular Sciences·Siyan ZhaoLinna Liu
Apr 5, 2014·Journal of Pharmaceutical and Biomedical Analysis·Miguel Angel Merlos RodrigoRene Kizek
Mar 13, 2014·Applied Microbiology and Biotechnology·Julia C UsbeckRudi F Vogel
Jan 16, 2013·Proteomics·Damiana PieragostinoAndrea Urbani
Nov 16, 2013·Critical Reviews in Microbiology·Chunlei ShiAndrea Isabel Moreno Switt
Aug 8, 2021·Microorganisms·Eva Torres-SangiaoCarlos García-Riestra
Jan 18, 2022·Applied Microbiology and Biotechnology·Monika K ForsterLudwig Niessen

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