In total, up to 894 genes were affected by BC subtype-specific ASEs and were enriched in Gene Ontology (GO) molecular functions “cell adhesion molecule binding” (FLNA, CTNND1, PTK2) and “anchoring junction” (AKT1, PIK3R1, CTNND1), and biological process “cytoskeleton organization” (NCOR1, CYLD, NUMA1) (Supplementary Fig. S2A). Here, CYLD is linked to breast cancer.