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Classification of gene expression patterns using a novel type-2 fuzzy multigranulation-based SVM model for the recognition of cancer mediating biomarkers

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Abstract

In this article, we propose a novel type-2 fuzzy multigranulation-based SVM model for gene expression pattern classification on human breast cancer dataset. Firstly, a type-2 fuzzy multigranulation system has been designed for the classification task dealing with noisy and nonlinear microarray gene expression patterns. Thereafter, the fuzzy if–then rules have been devised on the feature vectors of microarray to enable accurate bilinear classification process. The fuzzy if–then rules in the domain of type-2 fuzzy multigranulation system are able to identify efficient expression patterns that have been deferentially expressed from normal state to carcinogenic state. The proposed method reduces the structural complexity of the fuzzy if–then rules (type 1) since it works on upper and lower membership functions instead of a single membership function. In addition, a fuzzy rough approximation has been utilized in the model to reduce the computational cost. Lastly, the association among genes consisting of significantly different expression patterns from normal state to malignant state has been recognized with respect to their nature. The effectiveness of the proposed method has been implemented on eight microarray gene expression datasets for human breast cancer patients. Moreover, we have validated the results by F-score and NCBI database which signify that the proposed model performs better in comparison with the existing methods.

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Authors and Affiliations

  1. Department of Computer Science and Engineering, Sister Nivedita University, Kolkata, India

    Swarup Kr Ghosh

  2. Department of Computer Science and Engineering, Netaji Subhash Engineering College, Kolkata, India

    Anupam Ghosh

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  1. Swarup Kr Ghosh
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  2. Anupam Ghosh
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Correspondence to Swarup Kr Ghosh.

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Ghosh, S.K., Ghosh, A. Classification of gene expression patterns using a novel type-2 fuzzy multigranulation-based SVM model for the recognition of cancer mediating biomarkers. Neural Comput & Applic 33, 4263–4281 (2021). https://doi.org/10.1007/s00521-020-05241-7

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  • DOI: https://doi.org/10.1007/s00521-020-05241-7

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