Cancer Diagnosis through Contour Visualization of Gene Expression Leveraging Deep Learning Techniques

Venkatesan, Vinoth Kumar; Kuppusamy Murugesan, Karthick Raghunath; Chandrasekaran, Kaladevi Amarakundhi; Thyluru Ramakrishna, Mahesh; Khan, Surbhi Bhatia; Almusharraf, Ahlam; Albuali, Abdullah

Abstract

Prompt diagnostics and appropriate cancer therapy necessitate the use of gene expression databases. The integration of analytical methods can enhance detection precision by capturing intricate patterns and subtle connections in the data. This study proposes a diagnostic-integrated approach combining Empirical Bayes Harmonization (EBS), Jensen–Shannon Divergence (JSD), deep learning, and contour mathematics for cancer detection using gene expression data. EBS preprocesses the gene expression data, while JSD measures the distributional differences between cancerous and non-cancerous samples, providing invaluable insights into gene expression patterns. Deep learning (DL) models are employed for automatic deep feature extraction and to discern complex patterns from the data. Contour mathematics is applied to visualize decision boundaries and regions in the high-dimensional feature space. JSD imparts significant information to the deep learning model, directing it to concentrate on pertinent features associated with cancerous samples. Contour visualization elucidates the model’s decision-making process, bolstering interpretability. The amalgamation of JSD, deep learning, and contour mathematics in gene expression dataset analysis diagnostics presents a promising pathway for precise cancer detection. This method taps into the prowess of deep learning for feature extraction while employing JSD to pinpoint distributional differences and contour mathematics for visual elucidation. The outcomes underscore its potential as a formidable instrument for cancer detection, furnishing crucial insights for timely diagnostics and tailor-made treatment strategies.

Citation

Venkatesan, V. K., Kuppusamy Murugesan, K. R., Chandrasekaran, K. A., Thyluru Ramakrishna, M., Khan, S. B., Almusharraf, A., & Albuali, A. (in press). Cancer Diagnosis through Contour Visualization of Gene Expression Leveraging Deep Learning Techniques. Diagnostics, 13(22), 3452. https://doi.org/10.3390/diagnostics13223452

• Journal Article Type: Article
• Acceptance Date: Nov 4, 2023
• Online Publication Date: Nov 15, 2023
• Deposit Date: Dec 1, 2023
• Publicly Available Date: Dec 1, 2023
• Journal: Diagnostics
• Publisher: MDPI
• Peer Reviewed: Peer Reviewed
• Volume: 13
• Issue: 22
• Pages: 3452
• DOI: https://doi.org/10.3390/diagnostics13223452
• Keywords: Clinical Biochemistry