DiffRS-net: A Novel Framework for Classifying Breast Cancer Subtypes on Multi-Omics Data

Abstract

The precise classification of breast cancer subtypes is crucial for clinical diagnosis and treatment, yet early symptoms are often subtle. The use of multi-omics data from high-throughput sequencing can improve the classification accuracy. However, most research primarily focuses on the association between individual omics data and breast cancer, neglecting the interactions between different omics. This may fail to provide a comprehensive understanding of the biological processes of breast cancer. Here, we propose a novel framework called DiffRS-net for classifying breast cancer subtypes by identifying the association among different omics. DiffRS-net performs a differential analysis on each omics datum to identify differentially expressed genes (DE-genes) and adopts a robustness-aware Sparse Multi-View Canonical Correlation Analysis to detect multi-way association among DE-genes. These DE-genes with high levels of correlation are then used to train an attention learning network, thereby enhancing the prediction accuracy of breast cancer subtypes. The experimental results show that, by mining the associations between multi-omics data, DiffRS-net achieves a more accurate classification of breast cancer subtypes than the existing methods.

Keywords

• breast cancer subtypes
• multi-omics data integration
• Sparse Multi-View Canonical Correlation Analysis
• attention learning network