Article

Feature extraction in the analysis of proteomic mass spectra

State University of New York, Stony Brook, NY, USA.
PROTEOMICS (Impact Factor: 3.97). 07/2006; 6(7):2095-100. DOI: 10.1002/pmic.200500459
Source: PubMed

ABSTRACT Feature extraction or biomarker selection is a critical step in disease diagnosis and knowledge discovery based on protein MS. Many studies have discussed the classification methods applied in proteomics; however, few could be found to address feature extraction in detail. In this paper, we developed a systematic approach for the extraction of mass spectrum peak apex and peak area with special emphasis on noise filtration and peak calibration. Application to a head and neck cancer data generated at the Eastern Virginia Medical School [Wadsworth, J. T., Somers, K. D., Cazares, L. H., Malik, G. et al.., Clin. Cancer Res. 2004, 10, 1625-1632] revealed that the new feature extraction method would yield consistent and highly discriminatory biomarkers.

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