Integrating somatic mutation profiles with structural deep clustering network for metabolic stratification in pancreatic cancer: a comprehensive analysis of prognostic and genomic landscapes

• Published in: Briefings in bioinformatics 2023-11, Vol.25 (1)
• Main Authors: Zou, Min, Li, Honghao, Su, Dongqing, Xiong, Yuqiang, Wei, Haodong, Wang, Shiyuan, Sun, Hongmei, Wang, Tao, Xi, Qilemuge, Zuo, Yongchun, Yang, Lei
• Format: Article
• Language: English
• Subjects: Cluster Analysis; Genomics - methods; Humans; Mutation; Pancreatic Neoplasms - genetics; Problem Solving Protocol; Prognosis
• ISSN: 1467-5463; 1477-4054
• DOI: 10.1093/bib/bbad430

Pancreatic cancer is a globally recognized highly aggressive malignancy, posing a significant threat to human health and characterized by pronounced heterogeneity. In recent years, researchers have uncovered that the development and progression of cancer are often attributed to the accumulation of somatic mutations within cells. However, cancer somatic mutation data exhibit characteristics such as high dimensionality and sparsity, which pose new challenges in utilizing these data effectively. In this study, we propagated the discrete somatic mutation data of pancreatic cancer through a network propagation model based on protein-protein interaction networks. This resulted in smoothed somatic mutation profile data that incorporate protein network information. Based on this smoothed mutation profile data, we obtained the activity levels of different metabolic pathways in pancreatic cancer patients. Subsequently, using the activity levels of various metabolic pathways in cancer patients, we employed a deep clustering algorithm to establish biologically and clinically relevant metabolic subtypes of pancreatic cancer. Our study holds scientific significance in classifying pancreatic cancer based on somatic mutation data and may provide a crucial theoretical basis for the diagnosis and immunotherapy of pancreatic cancer patients.