IJPAM: Volume 76, No. 3 (2012)
FOR PEPTIDE IDENTIFICATION FROM
TANDEM MASS SPECTRA



Dalian University of Technology
Dalian, 116024, P.R. CHINA

University of Petroleum
Qingdao, 266555, P.R. CHINA
Abstract. Shotgun tandem mass spectrometry-based peptide
sequencing using programs such as SEQUEST allows high-throughput
identification of peptides, which in turn allows identification of
corresponding proteins. This paper present a novel machine learning
method based on Fuzzy Support Vector Machines (Fuzzy SVMs) to
discriminate between correct and incorrect identified peptides using
SEQUEST search results. Through incorporating fuzzy membership this
method can reduce the effect of noise in data points. Experiments
show that this approach outperforms the traditional SVMs based
technique, and it's an promising algorithm for peptide
identification task.
Received: February 20, 2012
AMS Subject Classification: 92B05
Key Words and Phrases: peptide identification, SEQUEST, fuzzy support vector machines, mass spectrometry
Download paper from here.
Source: International Journal of Pure and Applied Mathematics
ISSN printed version: 1311-8080
ISSN on-line version: 1314-3395
Year: 2012
Volume: 76
Issue: 3