Extended Data Fig. 10: Expression profile of PROMPTs, Xist RNA, and X-linked silencing in ZCCHC8-FKBP12F36V cells.
From: m6A and the NEXT complex direct Xist RNA turnover and X-inactivation dynamics
a, Schematic showing the experimental procedure for control or 26 h dTAG-13 treated samples for ChrRNA-seq analysis. b, Aggregated profile (top) and heatmap (bottom) showing the expression of expressed genes (blue) and their promoter upstream transcripts (PROMPTs) (red). The negative value shown in red in this plot indicates antisense transcription. Plots show data for transcription start site ± 2.5 kb. c, Genome browser screenshot of ChrRNA-seq of the Xist gene from ZCCHC8 degron samples with Dox or dTAG-13 + Dox treatment. d, PCA using allelic ratio of X-linked genes (n = 237) for samples of acute depletion of ZCCHC8 in Fig. 5 or YTHDC1 in Fig. 4, along with time-course WT (iXist-ChrX129, A11B2 clone) cells, cells with SPEN knockout or SPOC mutant, and cells with Xist B/C-repeat deletion (data from ref. 17). Note that X-linked gene silencing is defective in SPEN knockout, SPOC mutant, and Xist B/C-repeat deletion, thus datapoints representing those samples lie away from the predicted silencing trajectory.
