Fig. 3: Reprogramming of the FOXA1 cistrome in NEPC.

a Hierarchical clustering of LuCaP PDXs by FOXA1-binding profiles. “DN” (“double-negative”) indicates a PDX without AR or NE marker expression. FOXA1 mutational status is noted; see also Supplementary Table 3). b Venn diagram of lineage-enriched and shared FOXA1-binding sites and their overlap with lineage-enriched candidate regulatory elements (Ad-CREs and Ne-CREs). Differential FOXA1 peaks were identified from n = 5 NEPC and n = 11 PRAD PDXs. c Normalized tag densities for H3K27ac/FOXA1 ChIP-seq and ATAC-seq at Ne-CREs and Ad-CREs. Three representative NEPC and PRAD PDXs are shown. d Average normalized tag densities for FOXA1 in normal prostate, primary PRAD, and PDXs derived from PRAD metastases (Met PRAD) or NEPC (five samples in each category) at differential FOXA1-binding sites between these groups. There are insufficient differential sites to display (<100) for the Primary PRAD > Met PRAD comparison and the Primary PRAD vs. Normal prostate comparisons.