Extended Data Fig. 7: PROX1 predominantly closes bound chromatin and silences associated genes.
a, MA-plot of ATAC-seq differentially accessible regions (DAR) at day 2 of iHep reprogramming with or without Prox1 OE (n = 3; Methods). b, Percentage of closed and opened regions upon Prox1 OE in a. c, PCA of DARs in a labeled by condition and replicate and upon OE of GFP or Prox1 alone in MEFs (n = 3). d, Correlation of DARs between indicated conditions and replicates in c. e, Top: mean Tn5 transposon adapter insertions at indicated conditions from a centered at PROX1 CUT&RUN binding sites. Bottom: chromatin accessibility changes at PROX1 binding sites between 4-in-1 + GFP and 4-in-1 + Prox1 indicate decreased accessibility upon Prox1 OE. f, Differential gene expression of cells in a based on RNA-seq (n = 2), for genes with differentially accessible promoter (p adj < 0.05) within ±2 kb of their TSS and an overlapping CUT&RUN peak with a PROX1 binding motif (Methods).
