A Clustering Based Hybrid System for Mass Spectrometry Data Analysis

  • Pengyi Yang
  • Zili Zhang
Conference paper

DOI: 10.1007/978-3-540-88436-1_9

Part of the Lecture Notes in Computer Science book series (LNCS, volume 5265)
Cite this paper as:
Yang P., Zhang Z. (2008) A Clustering Based Hybrid System for Mass Spectrometry Data Analysis. In: Chetty M., Ngom A., Ahmad S. (eds) Pattern Recognition in Bioinformatics. PRIB 2008. Lecture Notes in Computer Science, vol 5265. Springer, Berlin, Heidelberg

Abstract

Recently, much attention has been given to the mass spectrometry (MS) technology based disease classification, diagnosis, and protein-based biomarker identification. Similar to microarray based investigation, proteomic data generated by such kind of high-throughput experiments are often with high feature-to-sample ratio. Moreover, biological information and pattern are compounded with data noise, redundancy and outliers. Thus, the development of algorithms and procedures for the analysis and interpretation of such kind of data is of paramount importance. In this paper, we propose a hybrid system for analyzing such high dimensional data. The proposed method uses the k-mean clustering algorithm based feature extraction and selection procedure to bridge the filter selection and wrapper selection methods. The potential informative mass/charge (m/z) markers selected by filters are subject to the k-mean clustering algorithm for correlation and redundancy reduction, and a multi-objective Genetic Algorithm selector is then employed to identify discriminative m/z markers generated by k-mean clustering algorithm. Experimental results obtained by using the proposed method indicate that it is suitable for m/z biomarker selection and MS based sample classification.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2008

Authors and Affiliations

  • Pengyi Yang
    • 1
  • Zili Zhang
    • 1
    • 2
  1. 1.Intelligent Software and Software Engineering LaboratoryFaculty of Computer and Information Science, Southwest UniversityChongqingChina
  2. 2.School of Engineering and Information TechnologyDeakin UniversityGeelongAustralia

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