Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer

Leif E. Peterson; Ron C. Hoogeveen; Henry J. Pownall; Joel D. Morrisett

doi:10.1109/ijcnn.2006.246877

Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer

Leif E. Peterson, Ron C. Hoogeveen, Henry J. Pownall, Joel D. Morrisett

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

7 Scopus citations

Abstract

Classification analysis was performed on 322 SELDI-TOF-MS protein expression profiles for prostate cancer. Feature ranking was based on the F-test, information gain (entropy), and Gini diversity applied in a pairwise, one-against-all, and all-at-once modular form. Classifiers included 4NN, NBC, LDA, LVQ1, SVM, and ANN. 4-class bootstrap (0.632) accuracies were in the range 50-80%, with NBC resulting in the lowest average accuracy (50-66%) and SVM resulting in the greatest average accuracy (71-79%). A 12-peak model with 88% accuracy collapsed into 6 peaks with m/z values of 3460, 4172, 4581, 6890, 14281 and 14696. The peaks identified may be confirmed in the future to be markers of early detection and/or therapy.

Original language	English (US)
Title of host publication	International Joint Conference on Neural Networks 2006, IJCNN '06
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	3828-3835
Number of pages	8
ISBN (Print)	0780394909, 9780780394902
DOIs	https://doi.org/10.1109/ijcnn.2006.246877
State	Published - 2006
Event	International Joint Conference on Neural Networks 2006, IJCNN '06 - Vancouver, BC, Canada Duration: Jul 16 2006 → Jul 21 2006

Publication series

Name	IEEE International Conference on Neural Networks - Conference Proceedings
ISSN (Print)	1098-7576

Other

Other	International Joint Conference on Neural Networks 2006, IJCNN '06
Country/Territory	Canada
City	Vancouver, BC
Period	7/16/06 → 7/21/06

ASJC Scopus subject areas

Software

Access to Document

10.1109/ijcnn.2006.246877

Cite this

Peterson, L. E., Hoogeveen, R. C., Pownall, H. J., & Morrisett, J. D. (2006). Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer. In International Joint Conference on Neural Networks 2006, IJCNN '06 (pp. 3828-3835). Article 1716625 (IEEE International Conference on Neural Networks - Conference Proceedings). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/ijcnn.2006.246877

Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer. / Peterson, Leif E.; Hoogeveen, Ron C.; Pownall, Henry J. et al.
International Joint Conference on Neural Networks 2006, IJCNN '06. Institute of Electrical and Electronics Engineers Inc., 2006. p. 3828-3835 1716625 (IEEE International Conference on Neural Networks - Conference Proceedings).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Peterson, LE, Hoogeveen, RC, Pownall, HJ & Morrisett, JD 2006, Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer. in International Joint Conference on Neural Networks 2006, IJCNN '06., 1716625, IEEE International Conference on Neural Networks - Conference Proceedings, Institute of Electrical and Electronics Engineers Inc., pp. 3828-3835, International Joint Conference on Neural Networks 2006, IJCNN '06, Vancouver, BC, Canada, 7/16/06. https://doi.org/10.1109/ijcnn.2006.246877

Peterson LE, Hoogeveen RC, Pownall HJ, Morrisett JD. Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer. In International Joint Conference on Neural Networks 2006, IJCNN '06. Institute of Electrical and Electronics Engineers Inc. 2006. p. 3828-3835. 1716625. (IEEE International Conference on Neural Networks - Conference Proceedings). doi: 10.1109/ijcnn.2006.246877

Peterson, Leif E. ; Hoogeveen, Ron C. ; Pownall, Henry J. et al. / Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer. International Joint Conference on Neural Networks 2006, IJCNN '06. Institute of Electrical and Electronics Engineers Inc., 2006. pp. 3828-3835 (IEEE International Conference on Neural Networks - Conference Proceedings).

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abstract = "Classification analysis was performed on 322 SELDI-TOF-MS protein expression profiles for prostate cancer. Feature ranking was based on the F-test, information gain (entropy), and Gini diversity applied in a pairwise, one-against-all, and all-at-once modular form. Classifiers included 4NN, NBC, LDA, LVQ1, SVM, and ANN. 4-class bootstrap (0.632) accuracies were in the range 50-80%, with NBC resulting in the lowest average accuracy (50-66%) and SVM resulting in the greatest average accuracy (71-79%). A 12-peak model with 88% accuracy collapsed into 6 peaks with m/z values of 3460, 4172, 4581, 6890, 14281 and 14696. The peaks identified may be confirmed in the future to be markers of early detection and/or therapy.",

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Classification analysis of surface-enhanced laser desorption/ionization mass spectral serum profiles for prostate cancer

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