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<p>Colorectal cancer (CRC) is a significant global health challenge, closely linked with inflammatory bowel disease (IBD). Understanding the genetic and molecular underpinnings of CRC and its association with IBD is critical for early diagnosis and personalized treatment. This study introduces a novel Hybrid Radial Basis Function (RBF) Network approach for gene clustering to uncover key genetic interactions and pathways associated with these conditions. Gene datasets related to CRC and IBD were retrieved from public databases, including OMIM and Entrez Gene. Functional and structural analyses of these genes were conducted using bioinformatics tools such as STRING and GeneMania. A Hybrid RBF Network clustering methodology was employed to analyze gene sequence similarities, leveraging density thresholds, Gaussian functions, and clustering resolution parameters for optimal performance. The clustering quality was evaluated using metrics like the Silhouette Score, Calinski–Harabasz Index, and Davies–Bouldin Index. The study identified central genes such as APC, SMAD4, and MSH2 as critical nodes in the gene interaction network, emphasizing their role in CRC and IBD pathogenesis. The clustering methodology demonstrated superior performance (Silhouette Score: 0.70; Calinski–Harabasz Index: 30.5; Davies-Bouldin Index: 0.50) compared to conventional techniques. Furthermore, interactions between NLRP3 and PYCARD highlighted the potential involvement of inflammasomes in linking chronic inflammation to carcinogenesis. The proposed Hybrid RBF Network approach provides a robust framework for gene clustering and provides new insights into the genetic basis of CRC and IBD. Our work highlights the transformative potential of machine learning and bioinformatics in advancing genomic research and precision medicine.</p>

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Unraveling gene interaction networks in colorectal cancer and inflammatory bowel disease via a novel hybrid radial basis function network

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年1月23日

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  • Duygu Kırkık,
  • Faruk Bulut

摘要

Colorectal cancer (CRC) is a significant global health challenge, closely linked with inflammatory bowel disease (IBD). Understanding the genetic and molecular underpinnings of CRC and its association with IBD is critical for early diagnosis and personalized treatment. This study introduces a novel Hybrid Radial Basis Function (RBF) Network approach for gene clustering to uncover key genetic interactions and pathways associated with these conditions. Gene datasets related to CRC and IBD were retrieved from public databases, including OMIM and Entrez Gene. Functional and structural analyses of these genes were conducted using bioinformatics tools such as STRING and GeneMania. A Hybrid RBF Network clustering methodology was employed to analyze gene sequence similarities, leveraging density thresholds, Gaussian functions, and clustering resolution parameters for optimal performance. The clustering quality was evaluated using metrics like the Silhouette Score, Calinski–Harabasz Index, and Davies–Bouldin Index. The study identified central genes such as APC, SMAD4, and MSH2 as critical nodes in the gene interaction network, emphasizing their role in CRC and IBD pathogenesis. The clustering methodology demonstrated superior performance (Silhouette Score: 0.70; Calinski–Harabasz Index: 30.5; Davies-Bouldin Index: 0.50) compared to conventional techniques. Furthermore, interactions between NLRP3 and PYCARD highlighted the potential involvement of inflammasomes in linking chronic inflammation to carcinogenesis. The proposed Hybrid RBF Network approach provides a robust framework for gene clustering and provides new insights into the genetic basis of CRC and IBD. Our work highlights the transformative potential of machine learning and bioinformatics in advancing genomic research and precision medicine.