Integrated Multi-omics Survival Analysis of Gynecologic and Breast Cancers

This study utilized a multi-omics approach, incorporating gene expression, methylation, copy number variation, and mutation data, to analyze the survival of patients with Breast Carcinoma and Gynecologic Cancers (Ovarian Serous Cystadenocarcinoma, Uterine Corpus Endometrial Carcinoma, Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma, and Uterine Carcinosarcoma). The goal was to identify pathways and specific genes within those pathways that were significantly associated with patient survival. The MOSClip R package, a topological pathway analysis tool, was utilized to identify significant pathways, modules, and genes in survival analysis. This tool was chosen for its unique ability to perform survival analysis using multi-omics data while accounting for interactions among genes. Then, Cytoscape was used to visualize the topology of significant genes within each module. Through this analysis, 33 genes were identified as being common among different types of cancers. Afterwards, a comprehensive literature review was conducted to compare our findings with those of other studies. Then, heatmaps were created for each cancer type to illustrate the effect of significant genes on patient survival. Subsequently, Kaplan-Meier plots were compared among different types of cancers to provide valuable insights into the survival rates. Finally, an additional test was performed to assess the accuracy of survival prediction.