Gene expression feature selection for prostate cancer diagnosis using a two‐phase heuristic–deterministic search strategy. Issue 4 (1st August 2018)

• Record Type: Journal Article
• Authors: Shahbeig, Saleh; Rahideh, Akbar; Helfroush, Mohammad Sadegh; Kazemi, Kamran
• Is Part Of: IET systems biology. Volume 12:Issue 4(2018)
• Page Start: 162
• Page End: 169
• Publication Date: 2018-08-01
• Subjects: cancer -- biological organs -- optimisation -- feature extraction -- search problems -- particle swarm optimisation -- pattern classification -- genetics; biomarkers -- gene expression feature selection -- prostate cancer diagnosis -- heuristic–deterministic search strategy -- two‐phase search strategy -- gene expression data -- statistical filtering method -- noisiest data -- multiobjective optimisation -- particle swarm optimisation algorithm -- chaotic method -- selection algorithm -- discriminant genes -- available challenging prostate cancer data -- informative genes; Systems biology -- Periodicals; Cell physiology -- Periodicals; Biological systems -- Mathematical models -- Periodicals; Genetics -- Mathematical models -- Periodicals; Computational biology -- Periodicals; 573
• DOI: 10.1049/iet-syb.2017.0044
• Languages: English
• ISSNs: 1751-8849

Abstract

Abstract : Here, a two‐phase search strategy is proposed to identify the biomarkers in gene expression data set for the prostate cancer diagnosis. A statistical filtering method is initially employed to remove the noisiest data. In the first phase of the search strategy, a multi‐objective optimisation based on the binary particle swarm optimisation algorithm tuned by a chaotic method is proposed to select the optimal subset of genes with the minimum number of genes and the maximum classification accuracy . Finally, in the second phase of the search strategy, the cache‐based modification of the sequential forward floating selection algorithm is used to find the most discriminant genes from the optimal subset of genes selected in the first phase. The results of applying the proposed algorithm on the available challenging prostate cancer data set demonstrate that the proposed algorithm can perfectly identify the informative genes such that the classification accuracy, sensitivity, and specificity of 100% are achieved with only nine biomarkers.