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. 2022 Jan 10;13:131. doi: 10.1038/s41467-021-27800-9

Fig. 6. Promoter-enhancer interactions (PEIs) rewired in chicken granulosa cells during folliculogenesis.

Fig. 6

a Genes with higher regulatory potential scores (RPSs) show elevated expression levels. The genes are divided into six groups based on their RPS values (five quintiles of non-zero values and RPS equals zero). b Significant differences observed in expression levels of the genes with increased, decreased, or stable RPS values between adjacent stages. P values were calculated using two-sided Wilcoxon rank-sum test. c K-means clustering of the genes with RPS changes during folliculogenesis (k = 6). The proportions of genes interacting with super-enhancers (SEs), regular enhancers (REs), and poised enhancers (PEs) are displayed on the right. d The most enriched GO-BP terms for genes with high RPS at a specific stage. e PEI rewiring of a functional gene FDX1 (red) during folliculogenesis. Top: schematics of PEIs and Hi-C contact heatmaps of the genomic region containing FDX1 (Chr.1: 180.47–181.09 Mb). The light blue line indicates loop domains, while black arrowheads indicate CTCF motif orientation at loop anchors. Middle: genome browser tracks of ATAC-seq signals, H3K27ac signals, and gene expression levels. Bottom: gene structures in the region. The dashed line boxes indicate the chromosomal locations of the genes. For panels a and b, the internal line indicates the median, the box limits indicate the upper and lower quartiles and the whiskers extend to 1.5 IQR from the quartiles. Source data are provided as a Source Data file.