CDK12 and neoplasm: We identified frequent copy number alterations, SNVs and InDels in other breast cancer driver genes previously reported to be frequently altered in HER2+ specific breast cancer (Supplementary Fig. 3; Supplementary Table 2–4) including CDK12, MYC, PIK3CA with copy number loss or somatic mutations in known tumour suppressor genes including TP53 and NF1.