Although we could not directly assess the FOXA1 3′-UTR in breast cancer samples, we note that somatic indels in the FOXA1 coding region are significantly less frequent in breast cancer than prostate cancer (5/982 in TCGA breast invasive carcinomas vs 15/499 in TCGA prostate adenocarcinomas, p = 0.0002, Fisher’s exact test). Here, FOXA1 is linked to breast carcinoma.