Paper Info
Title
Accurate peak list extraction from proteomic mass spectra for identification and profiling studies.
Abstract
Mass spectrometry is an essential technique in proteomics both to identify the proteins of a biological sample and to compare proteomic profiles of different samples. In both cases, the main phase of the data analysis is the procedure to extract the significant features from a mass spectrum. Its final output is the so-called peak list which contains the mass, the charge and the intensity of every detected biomolecule. The main steps of the peak list extraction procedure are usually preprocessing, peak detection, peak selection, charge determination and monoisotoping operation.This paper describes an original algorithm for peak list extraction from low and high resolution mass spectra. It has been developed principally to improve the precision of peak extraction in comparison to other reference algorithms. It contains many innovative features among which a sophisticated method for managing the overlapping isotopic distributions.The performances of the basic version of the algorithm and of its optional functionalities have been evaluated in this paper on both SELDI-TOF, MALDI-TOF and ESI-FTICR ECD mass spectra. Executable files of MassSpec, a MATLAB implementation of the peak list extraction procedure for Windows and Linux systems, can be downloaded free of charge for nonprofit institutions from the following web site: http://aimed11.unipv.it/MassSpec.
Year
DOI
Venue
2010
10.1186/1471-2105-11-518
BMC Bioinformatics
Keywords
Field
DocType
proteins,spectrum,algorithms,high resolution,mass spectrometry,microarrays,bioinformatics,mass spectra,proteomics,data analysis
Biomolecule,Biology,Proteomics,Profiling (computer programming),Mass spectrum,Electron-capture dissociation,Mass spectrometry,Bioinformatics,DNA microarray
Journal
Volume
Issue
ISSN
11
1
1471-2105
Citations 
PageRank 
References 
13
0.46
12
Authors
2
Name
Order
Citations
PageRank
Nicola Barbarini1695.71
P Magni243838.77