Fig. 4: HCF-1 is dispensable for most SET-26 recruitment genome-wide but facilitates SET-26 binding at a subset of somatic binding sites.

a Screenshot from IGV shows normalized somatic SET-26 binding and peak calls in a portion of Chromosome II (captured by CUT&RUN of set-26::ha worms, N = 2) in controls or hcf-1(-) mutants grown on glp-1 RNAi. b Number of SET-26 peaks called in combined replicates of controls or hcf-1(−) mutants grown on glp-1 RNAi. c Metaplot (top) and heatmap (bottom) of z-scores representing normalized SET-26 signal in somatic SET-26 binding sites and surrounding 2 kb up- and downstream in either controls or hcf-1(-) mutants grown on glp-1 RNAi. d Volcano plot of SET-26 binding regions determined by DiffBind to be significantly different (pink, FDR < = 0.05) or unchanged (blue, FDR > 0.05) in hcf-1(-) mutants compared to controls grown on glp-1 RNAi. DiffBind FDR values are calculated using DESeq2. e Venn diagram showing the overlap of the somatic genes with significantly lower SET-26 binding in hcf-1(-) mutants grown on glp-1 RNAi (as determined in d) and those with up- or downregulated RNA expression in germline-less set-26(-) and hcf-1(-) mutants (as seen in Fig. 2a, b). Wormcat GO enrichment analysis for genes with lower SET-26 binding in hcf-1(-) mutants on glp-1 RNAi that are either (f) upregulated or (g) downregulated in RNA expression in set-26(-) and hcf-1(-) mutants (from e). Wormcat p values are determined by one-sided Fisher test with FDR correction. h-i Venn diagram showing the number of genes with decreased SET-26 or HCF-1 binding in the opposite mutant and the (h) 122 that overlap and are upregulated or (i) 79 that overlap and are downregulated in RNA expression in both mutants as determined in (e) and Fig. 3e. Gene sets and differential peaks are provided in Supplementary Data 3 and 4.