Preprocessing of Tandem Mass Spectrometric Data Based on Decision Tree Classification

In this study, we present a preprocessing method for quadrupole time-of-flight (Q-TOF) tandem mass spectra to increase the accuracy of database searching for peptide (protein) identification. Based on the natural isotopic information inherent in tandem mass spectra, we construct a decision tree afte...

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Bibliographic Details
Published in:Genomics, proteomics & bioinformatics proteomics & bioinformatics, 2005, Vol.3 (4), p.231-237
Main Authors: Zhang, Jing-Fen, He, Si-Min, Cai, Jin-Jin, Cao, Xing-Jun, Sun, Rui-Xiang, Fu, Yan, Zeng, Rong, Gao, Wen
Format: Article
Language:English
Subjects:
Amino Acid Sequence
Animals
Cattle
Computational Biology
Databases, Protein
decision tree
Decision Trees
feature selection
Isotopes
Mass Spectrometry
peptide identification
Peptides - analysis
Peptides - chemistry
Peptides - metabolism
Proteins - analysis
Proteins - chemistry
Proteins - metabolism
Q-TOF tandem mass spectra
Sensitivity and Specificity
Serum Albumin, Bovine - chemistry
Trypsin - pharmacology
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Summary:In this study, we present a preprocessing method for quadrupole time-of-flight (Q-TOF) tandem mass spectra to increase the accuracy of database searching for peptide (protein) identification. Based on the natural isotopic information inherent in tandem mass spectra, we construct a decision tree after feature selection to classify the noise and ion peaks in tandem spectra. Furthermore, we recognize overlapping peaks to find the monoisotopic masses of ions for the following identification process. The experimental results show that this preprocessing method increases the search speed and the reliability of peptide identification.
ISSN:1672-0229
2210-3244
DOI:10.1016/S1672-0229(05)03032-9