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Heuristic Non Parametric Collateral Missing Value Imputation: A Step Towards Robust Post-genomic Knowledge Discovery

  • Muhammad Shoaib B. Sehgal
  • Iqbal Gondal
  • Laurence S. Dooley
  • Ross Coppel
Part of the Lecture Notes in Computer Science book series (LNCS, volume 5265)

Abstract

Microarrays are able to measure the patterns of expression of thousands of genes in a genome to give profiles that facilitate much faster analysis of biological processes for diagnosis, prognosis and tailored drug discovery. Microarrays, however, commonly have missing values which can result in erroneous downstream analysis. To impute these missing values, various algorithms have been proposed including Collateral Missing Value Estimation (CMVE), Bayesian Principal Component Analysis (BPCA), Least Square Impute (LSImpute), Local Least Square Impute (LLSImpute) and K-Nearest Neighbour (KNN). Most of these imputation algorithms exploit either the global or local correlation structure of the data, which normally leads to larger estimation errors. This paper presents an enhanced Heuristic Non Parametric Collateral Missing Value Imputation (HCMVI) algorithm which uses CMVE as its core estimator and Heuristic Non Parametric strategy to compute optimal number of estimator genes to exploit optimally both local and global correlations.

Keywords

Gene Selection Imputation Method Cancer Data Normalize Root Mean Square Error Breast Cancer Data 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2008

Authors and Affiliations

  • Muhammad Shoaib B. Sehgal
    • 1
  • Iqbal Gondal
    • 2
  • Laurence S. Dooley
    • 3
  • Ross Coppel
    • 4
    • 5
  1. 1.ARC Centre of Excellence in Bioinformatics at IMBUniversity of QueenslandSt LuciaAustralia
  2. 2.Faculty of Information TechnologyMonash UniversityChurchillAustralia
  3. 3.Department of Communications and SystemsThe Open UniversityMilton KeynesUnited Kingdom
  4. 4.Department of MicrobiologyAustralia
  5. 5.Victorian Bioinformatics ConsortiumClaytonAustralia

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