Fig. 3: Transcription factor analysis of esophageal eosinophils.

A HOMER motif enrichment p-values (hypergeometric test) for esophageal (red bar) and mature bone marrow (blue bar) enriched ATAC-seq regions, indicating highly represented transcription factor binding site motifs. The DNA sequence of each transcription factor binding motif is shown to the right, with the nucleotide position and probability shown visually. Significance is expressed as -log(P-value). B Gene expression levels for select, enriched AP-1‒like transcription factors in bone marrow (BM) and esophageal FACS-sorted eosinophils from CC10-iIL13Tg mice (data taken from GEO: GSE81135²). Data are presented as mean ± SD; individual markers represent gene expression in individual mice (n = 3). Statistical analysis shows a two-sided Student t test. C String-db derived interaction diagram showing predicted interactions of enriched AP-1 complex‒associated transcription factor family members with each other and with other proteins. D, E Upset plot showing top 10 predicted combinations of transcription factor binding sites present in each accessible region of chromatin and their frequency within (D) esophageal eosinophil‒enriched regions and (E) bone marrow eosinophil‒enriched regions. Color key: filled dots (red [esophageal] or blue [bone marrow]) indicate that transcription factor binding sites are co-present within the same accessible region of chromatin, with gray dots indicating that the putative transcription factor binding site is not present within a given ATAC-seq peak. The number on the y-axis indicates the number of peaks with that combination of putative transcription factor binding sites. F Genome profile view of chromatin accessibility surrounding C3ar1 showing the differentially regulated regions of the eosinophil epigenome enriched in esophageal eosinophils with putative transcription factor binding sites predicted by HOMER. G Genome profile view of chromatin accessibility surrounding Il1rl1(ST2/IL33R) showing the differentially regulated regions of the eosinophil epigenome enriched in esophageal eosinophils with putative transcription factor binding sites predicted by HOMER.