Evaluation and comparison of multi-omics data integration methods for cancer subtyping
Fig 2
(A) Omics data types we used in this study. The main color of each heatmap (matrix) represents one type of omics data, i.e. black represents CNV, green represents miRNA expression, orange represents DNA methylation, and blue represents mRNA expression. The shade of color in each heatmap is proportional to the different values. (B) Datasets construction. As TCGA group assigned BRCA and COAD patients into five (i.e. “LumA”, “LumB”, “Basal”, “Her2”, and “normal”) and four (i.e. “CIN”, “GS”, “MSI”, and “POLE”) subtypes, respectively, in BRCA and COAD gold standards datasets of Dataset group #3, we use these assignments as gold standards of BRCA and COAD patients. (C) Omics data combinations. We use “Methy”, “mRNA”, and “miRNA” to represent DNA methylation, mRNA expression, and miRNA expression, respectively.