Objective data reduction algorithm of proteomic mass spectrum

  • Authors:
  • M. Nafati;M. Samson;B. Rossi

  • Affiliations:
  • IFR50, Proteom Plate-Form, Medical University, Nice, France;IFR50, Proteom Plate-Form, Medical University, Nice, France;IFR50, Proteom Plate-Form, Medical University, Nice, France

  • Venue:
  • ISCGAV'05 Proceedings of the 5th WSEAS International Conference on Signal Processing, Computational Geometry & Artificial Vision
  • Year:
  • 2005

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Abstract

Proteomic analysis is done primarily by the use of the two-dimensional electrophoreses (2-DE) technique coupled with the Mass Spectrometry (MS) analysis. The first technique helped by the proteomic imaging leads to the localization of the candidates proteins for mass spectrometry analysis. The comparison between the spectra of masses obtained and those theoretical of DataBase leads to the identification of proteins of interest in term of peptides or amino acids. The presence of parasitic and/or the absence of useful mass peaks distort(s) the result of the identification process. In this article, we propose an original data reduction algorithm with the aim of removing the spectra baseline, then removing parasitic mass peaks and amplifying those useful. The algorithm principle uses the dyadic muli-resolution technique (bio-orthogonal decomposition/reconstruction) coupled to the fuzzy logic thresholding. In order to evaluate the quality of this algorithm, we present a comparison of the results obtained by our algorithm and those obtained using the data reduction software of MALDI-TOF spectrometer (Matrix-Assisted Laser Desorption/ionization).