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. Author manuscript; available in PMC: 2018 Dec 17.
Published in final edited form as: Cell Rep. 2018 Nov 13;25(7):1741–1755.e7. doi: 10.1016/j.celrep.2018.10.051

Figure 3. ∆Np63 Expression Is Sufficient to Install and Maintain a Squamous Enhancer Landscape in PDA.

Figure 3.

(A and B) TP63 knockout in BxPC3 cells and H3K27ac ChIP-seq analysis. (A) Metagene representation of H3K27ac signal in squamous elements (left), random control elements (middle), and all of the H3K27ac elements (right) in TP63 knockout and control cells. (B) ChIP-seq profiles of TP63 (top track) and H3K27ac at representative squamous elements close to KRT5 and KRT6A (top) and PTHLH (bottom). BxPC3-Cas9 cells were cross-linked and prepared for ChIP-seq analysis on day 5 post-infection, 3 days following G418 selection, with two independent TP63 or control sgRNAs (sgNEGs).

(C and D) ∆Np63 expression in SUIT2 cells and H3K27ac ChIP-seq analysis. (C) Metagene representation of H3K27ac signal in squamous elements (left), random control elements (middle), and all of the H3K27ac elements (right) in SUIT2 cells expressing ∆Np63 or control cells. (D) ChIP-seq profiles of ectopically expressed FLAG-tagged TP63 (top track) and H3K27ac at representative squamous elements close to KRT5 and KRT6A (top) and PTHLH (bottom). SUIT2 cells were cross-linked and prepared for ChIP-seq analysis on day 7 post-infection, 5 days post-G418 selection.

(E) Metagene representation of H3K27ac signal in squamous elements (top) and random control elements (bottom) in the indicated progenitor-like PDA cells following dox-inducible expression of ∆Np63 or GFP as a control. Cells were cross-linked and prepared for ChIP-seq analysis 48 hr following dox administration.

See also Figure S3.