Fig. 1

Characterization of promoter-proximal THSSs at differentially expressed genes during HD astrocyte differentiation. a Venn diagram showing overlap of genes differentially expressed between HD and WT cells at each stage of astrocyte differentiation. b Track view of RNA-seq and THSSs, as well as identified motifs within ATAC-seq peaks across the KCNJ10 gene. HD samples are shown in red and WT samples are shown in blue. c Heatmap depicting 5643 genes found DE at any stage of differentiation. Red indicates increased expression in HD cells and blue indicates reduced expression in HD cells. Each row corresponds to the same gene. d Heatmap depicting differential THSS enrichment at DE gene promoters. The red color represents HD enrichment and the blue color indicates HD depletion. Genes arranged according to gene order in c. e Distributions of ATAC-seq peaks around the promoter (± 2 kb TSS) in HD and WT cells at each timepoint across differentiation. f, g TF motifs identified at differential promoter-proximal ATAC-seq peaks in HD (f) and WT (g) cells. Only TF motifs with significant enrichment at least at one stage were included (p < 0.05)