Fig. 8

Hox proteins collaborate with Exd/Hth promoting chromatin accessibility. a Representative ChIP-Seq and ATAC-Seq profiles showing increased chromatin accessibility on Dfd and Abd-B binding. b Number of regions with significantly increased chromatin accessibility (edgeR fdr ≤ 0.01 and logFC≥ 1.5 for ATAC-Seq reads) on induced versus non-induced samples for Dfd, Ubx, and Abd-B are shown as colored bars. Number of regions with significantly reduced ATAC-Seq reads (edgeR fdr ≤ 0.01 and logFC ≤ − 1.5 for ATAC-Seq reads) are shown in grey as negative values. c Representative ChIP-Seq and ATAC-Seq profiles showing collaboration between Hox and Exd/Hth promoting chromatin accessibility. d Boxplot of ATAC scores in Exd/Hth-enhanced Hox binding regions for stable lines expressing Hox alone, Hox in the presence of Hth (Hox+Hth), Hth alone and, as a reference, the basal Kc167-cell (Kc) ATAC scores. All three Hox+Hth show increased ATAC scores compared to either Hox alone or Hth alone; p values < 0.01, Dunn’s Kruskal-Wallis multiple comparison. Although the Kc167 ATAC scores cannot be directly compared to the stable cell line ATAC score data, the low median scores indicates that these regions are relatively inaccessible in the basal Kc167 state. e: Boxplot of ChIP-seq scores in the same regions as in d showing Hox ChIP, Hox ChIP in the presence of Exd/Hth (Hox+Hth) and Hth ChIP