Open AccessDiscrimination analysis of mass spectrometry proteomics for ovarian cancer detection 1
Author(s) -
HONG Yanjun,
WANG Xiaodan,
SHEN David,
ZENG Su
Publication year - 2008
Publication title -
acta pharmacologica sinica
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.514
H-Index - 90
eISSN - 1745-7254
pISSN - 1671-4083
DOI - 10.1111/j.1745-7254.2008.00861.x
Subject(s) - linear discriminant analysis , normalization (sociology) , proteomics , mass spectrometry , cluster analysis , ovarian cancer , artificial intelligence , pattern recognition (psychology) , computer science , computational biology , chemistry , chromatography , cancer , biology , medicine , biochemistry , sociology , anthropology , gene
Aim: A discrimination analysis has been explored for the probabilistic classification of healthy versus ovarian cancer serum samples using proteomics data from mass spectrometry (MS). Methods: The method employs data normalization, clustering, and a linear discriminant analysis on surface‐enhanced laser desorption ionization (SELDI) time‐of‐flight MS data. The probabilistic classification method computes the optimal linear discriminant using the complex human blood serum SELDI spectra. Cross‐validation and training/testing data‐split experiments are conducted to verify the optimal discriminant and demonstrate the accuracy and robustness of the method. Results: The cluster discrimination method achieves excellent performance. The sensitivity, specificity, and positive predictive values are above 97% on ovarian cancer. The protein fraction peaks, which significantly contribute to the classification, can be available from the analysis process. Conclusion: The discrimination analysis helps the molecular identities of differentially expressed proteins and peptides between the healthy and ovarian patients.