Fig. 5: Highly expressed genes escape XIST-mediated dampening.
From: XIST dampens X chromosome activity in a SPEN-dependent manner during early human development
a, Heat map showing the pXi allelic ratio of XIST-sensitive and XIST-resistant genes in XIST WT, KO, UT CRISPRi (Dox−) and Dox-treated CRISPRi (Dox+) naive H9 cells. Constitutive and variable escapees from the Tukiainen study43 are highlighted in light blue and brown, respectively. b, Distance to closest escapee of XIST-sensitive (n = 47) and XIST-resistant (n = 13) genes. c, Percentage of escapees (constitutive and variable) and inactivated X-linked genes from the Tukiainen study43 among XIST-sensitive and XIST-resistant genes; chi-square test P value < 0.01 (**). d, XIST RAPseq counts on TSS ± 5 kb of XIST-sensitive (n = 47) and XIST-resistant (n = 13) genes in naive H9 cells. e, H3K27me3, H2AK119Ub and H3K9me3 counts on TSS ± 5 kb of XIST-sensitive (n = 47) and XIST-resistant (n = 13) genes in the presence (XIST WT and UT CRISPRi) or absence (XIST KO and Dox-treated CRISPRi) of XIST in naive H9 hES cells. f, ATAC-seq, H3K27ac and H3K4me3 counts on TSS ± 5 kb of XIST-sensitive (n = 47) and XIST-resistant (n = 13) genes in the presence (XIST WT and UT CRISPRi) or absence (XIST KO and Dox-treated CRISPRi) of XIST in naive H9 hES cells. g, Violin plots showing the log CPM expression level of XIST-sensitive (n = 47) and XIST-resistant (n = 13) genes in XIST WT, KO, UT CRISPRi and Dox-treated CRISPRi naive H9 cells, obtained from RNA-seq and fastGRO-seq data. All box plots represent the median (center), first and third quartiles (hinges) and ±1.5 IQR (whiskers). Unless otherwise specified, P values were calculated by a two-sided unpaired t-test. Levels of significance: NS (P ≥ 0.05), *P < 0.05, **P < 0.01, ***P < 0.001 and ****P < 0.0001.
