In this section, we apply integrative deep learning methods to real examples of breast cancer expression profiles provided by The Cancer Genome Atlas (TCGA) including mRNA, copy number variation (CNV), and epigenetic DNA methylation (http://cancergenome.nih.gov/; 300 samples of estrogen receptor binary outcome (i.e., ER+ and ER−)). The gene discussed is ESR1; the disease is breast carcinoma.