Protein Sequencing with an Adaptive Genetic Algorithm from Tandem Mass Spectrometry

In Proteomics, only the de novo peptide sequencing approach allows a partial amino acid sequence of a peptide to be found from a MS/MS spectrum. In this article a preliminary work is presented to discover a complete protein sequence from spectral data (MS and MS/MS spectra). For the moment, our appr...

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Bibliographic Details
Main Authors: Boisson, J.-C., Jourdan, L., Talbi, E.-G., Rolando, C.
Format: Conference Proceeding
Language:English
Subjects:
Algorithm design and analysis
Amino acids
Data mining
Genetic algorithms
Humans
Mass spectroscopy
MONOS devices
Peptides
Protein sequence
Proteomics
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Summary:In Proteomics, only the de novo peptide sequencing approach allows a partial amino acid sequence of a peptide to be found from a MS/MS spectrum. In this article a preliminary work is presented to discover a complete protein sequence from spectral data (MS and MS/MS spectra). For the moment, our approach only uses MS spectra. A genetic algorithm (GA) has been designed with a new evaluation function which works directly with a complete MS spectrum as input and not with a mass list like the other methods using this kind of data. Thus the mono isotopic peak extraction step which needs a human intervention is deleted. The goal of this approach is to discover the sequence of unknown proteins and to allow a better understanding of the differences between experimental proteins and proteins from databases.
ISSN:1089-778X
1941-0026
DOI:10.1109/CEC.2006.1688474