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Minimizing redundancy among genes selected based on the overlapping analysis

Mahmoud, O and Harrison, A and Gul, A and Khan, Z and Metodiev, MV and Lausen, B (2016) Minimizing redundancy among genes selected based on the overlapping analysis. In: UNSPECIFIED, ? - ?.

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Abstract

© Springer International Publishing Switzerland 2016. For many functional genomic experiments, identifying the most characterizing genes is a main challenge. Both the prediction accuracy and interpretability of a classifier could be enhanced by performing the classification based only on a set of discriminative genes. Analyzing overlapping between gene expression of different classes is an effective criterion for identifying relevant genes. However, genes selected according to maximizing a relevance score could have rich redundancy.We propose a scheme for minimizing selection redundancy, in which the Proportional Overlapping Score (POS) technique is extended by using a recursive approach to assign a set of complementary discriminative genes. The proposed scheme exploits the gene masks defined by POS to identify more integrated genes in terms of their classification patterns. The approach is validated by comparing its classification performance with other feature selection methods, Wilcoxon Rank Sum, mRMR, MaskedPainter and POS, for several benchmark gene expression datasets using three different classifiers: Random Forest; k Nearest Neighbour; SupportVector Machine. The experimental results of classification error rates show that our proposal achieves a better performance.

Item Type: Conference or Workshop Item (UNSPECIFIED)
Additional Information: Published proceedings: Studies in Classification, Data Analysis, and Knowledge Organization
Subjects: H Social Sciences > HA Statistics
Q Science > QA Mathematics
Q Science > QH Natural history > QH426 Genetics
Divisions: Faculty of Science and Health > Biological Sciences, School of
Faculty of Science and Health > Mathematical Sciences, Department of
Depositing User: Jim Jamieson
Date Deposited: 05 Dec 2016 21:16
Last Modified: 23 Jan 2019 00:18
URI: http://repository.essex.ac.uk/id/eprint/18343

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