Extended Data Fig. 10: Epigenetic regulation of PSG genes in trophoblasts and decreased expression of GATA2 in patient samples.
a, Genome browser screenshot of the PSG gene cluster showing the H3K27ac and H3K27me3 CUT&Tag signals. All tracks are displayed as RPM, with y axes ranging from zero to three for H3K27ac and zero to two for H3K27me3. The blue shadings highlight the intronic LTR8B elements within PSG genes. b, Expression and chromatin accessibility of transcription factors in the ST cell type called in Fig. 8c. The Padj was calculated using the one-tailed MAST model from Seurat for snRNA-seq and a one-tailed Poisson test for snATAC-seq. c, Genome browser screenshot showing expression and chromatin accessibility of GATA2 in the ST cell type from the snRNA-seq and the snATAC-seq. All tracks are displayed as RPM, with y axes ranging from 0 to 40 for snRNA-seq and 0 to 5 for snATAC-seq. d, Chromatin accessibility of GATA2-targeted genes transcriptional start site regions (top; n = 245) and number-matched shuffle control (bottom) between patient and control samples in the ST cell type from the snATAC-seq. Each dot represents a GATA2-targeted gene; P values were calculated using a one-tailed Wilcoxon test. The centre and bounds of boxes indicate the median and quartile of all data points, respectively. The minima and maxima of whiskers indicate quartile 1 − 1.5× the interquartile range and quartile 3 + 1.5× the interquartile range, respectively.
