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. 2023 Feb 2;207(9):1214–1226. doi: 10.1164/rccm.202205-0953OC

Figure 3.

Figure 3.

Basal stem cells (BSCs) from newborns with congenital diaphragmatic hernia (CDH) exhibit changes in chromatin accessibility. (A) Enrichment of target genes of epigenetic regulation among differentially expressed genes by bulk RNA sequencing between CDH and control BSCs. (B) Principal component analysis of assay for transposase accessible chromatin with sequencing datasets comparing CDH BSCs (n = 2) and control BSCs (n = 6). (C) Volcano plot highlighting significantly altered chromatin accessibility between CDH and control BSCs. (D) Summary of peak intensity within 1 kb surrounding the transcription start site of genes with at least one enriched peak between CDH and control BSCs. (E) Detailed examination of changes in peak signals within regulatory sequences of select genes. (F) HOMER motif analysis of chromatin accessibility. **P < 0.01 by Student’s t test. Ctrl = control; DN = downregulated; HOMER = hypergeometric optimization of motif enrichment; NS = not significant; NES = normalized enrichment score; NF-kB = nuclear factor kappa B; PC1 = principal component 1; PC2 = principal component 2; PWN = position weight matrix; UP = upregulated.