Fig. 6: Functional analysis of CUT&Tag and ENCODE ChIP-seq peaks.
From: CUT&Tag recovers up to half of ENCODE ChIP-seq histone acetylation peaks
a ChIPseeker assignment of peaks to regulatory elements. b ChromHMM assignment of peaks to chromatin states, showing the relative percentages of total peaks falling into each category (note that peaks can fall into multiple categories simultaneously). c ClusterProfiler gene ontology enrichment analysis of genes assigned to sample peaks. The plot displays negative log-transformed p-values corrected for multiple testing correction with Benjamini-Hochberg at a p-value cutoff of 0.05 (-log10(p.adj)) for top enriched GO terms in the over-representation analysis using a hypergeometric test. Dot size represents the GeneRatio, which reflects the proportion of total differentially expressed genes falling into a particular GO term. d HOMER top significantly enriched motifs across all samples. Dots colored by negative log-transformed p-values of enriched motifs from the hypergeometric test (-log(p.val)). Dot size corresponds to the number of times a motif appears in the target sequences (Ntarget). Motif enrichment was tested within 1000 bp windows of the peak center.
