Romidepsin and Panobinostat, but not PTC-209, alter chromatin accessibility across the KSHV genome.

Nucleosome density was assayed by FAIRE-seq in 293-KSHV.219 cells treated with DMSO or 1 μM Romidepsin or Panobinostat (A), or DMSO or 10 μM PTC-209 (B). Sequencing reads were mapped to the KSHV reference genome NC_009333, and mapped reads from biological replicates were merged. Statistically significant FAIRE peaks were identified using CLC Genomics Workbench with input DNA as a control. Red bars indicate regions of FAIRE enrichment. The black rectangles highlight the RTA promoter.