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Peaks detection and alignment for mass spectrometry data

Antoniadis, Anestis and Bigot, Jérémie and Lambert-Lacroix, Sophie Peaks detection and alignment for mass spectrometry data. (2010) Journal de la Société Française de Statistique, 151 (1). 17-37. ISSN 2102-6238

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Official URL: http://journal-sfds.fr/index.php/J-SFdS/article/view/40/33

Abstract

The goal of this paper is to review existing methods for protein mass spectrometry data analysis, and to present a new methodology for automatic extraction of significant peaks (biomarkers). For the pre-processing step required for data from MALDI-TOF or SELDI- TOF spectra, we use a purely nonparametric approach that combines stationary invariant wavelet transform for noise removal and penalized spline quantile regression for baseline correction. We further present a multi-scale spectra alignment technique that is based on identification of statistically significant peaks from a set of spectra. This method allows one to find common peaks in a set of spectra that can subsequently be mapped to individual proteins. This may serve as useful biomarkers in medical applications, or as individual features for further multidimensional statistical analysis. MALDI-TOF spectra obtained from serum samples are used throughout the paper to illustrate the methodology.

Item Type:Article
Additional Information:Thanks to SFdS editor. The definitive version is available at http://journal-sfds.fr/index.php/J-SFdS/article/view/40/33
Audience (journal):International peer-reviewed journal
Uncontrolled Keywords:
Institution:French research institutions > Centre National de la Recherche Scientifique - CNRS (FRANCE)
Other partners > Institut polytechnique de Grenoble (FRANCE)
French research institutions > Institut National de la Recherche en Informatique et en Automatique - INRIA (FRANCE)
Other partners > Université Pierre Mendès France, Grenoble 2 - UPMF (FRANCE)
Université de Toulouse > Université Toulouse III - Paul Sabatier - UPS (FRANCE)
Other partners > Universidad de Chile - UCHILE (CHILE)
Other partners > Université Joseph Fourier Grenoble 1 - UJF (FRANCE)
Laboratory name:
Statistics:download
Deposited By: Jérémie Bigot
Deposited On:14 May 2013 09:07

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