Fig. 3: Validation of 2cell stage heterogeneity with embryo-barcoded TACIT and CoTACIT.
From: Genome-coverage single-cell histone modifications for embryo lineage tracing
a, Connected UMAP visualization for early 2cell CoTACIT data (n = 89). Lines connect the same cells across modalities. Cells are coloured by WNN clusters. b, Violin plots showing histone-modification signals around major ZGA genes in 2cell 1 and 2cell 2 clusters. c, Track views of histone modifications on a representative locus in 2cell 1 (n = 55) and 2cell 2 (n = 34) single cells, with violin plots showing breadth scores across all genomic peaks. Box plots indicate the median (centre line), quartiles (limits) and 1.5× IQR (whiskers). NS, not significant. d, The workflow of in vivo and IVF embryo-barcoded TACIT experiments. e, Top, UMAP plots of single cells from in vivo early and late 2cell embryos. The fraction of embryos for which two cells are assigned to the same or different clusters are coloured in the bar graph. Bottom, violin plots showing the major ZGA score. Early 2cell (H3K27ac, 144; H3K4me3, 172); late 2cell (H3K27ac, 92; H3K4me3, 78). f, Linked dot plots of major ZGA scores for cells from the same in vivo embryo, with the black line linking the average scores. g, Top, UMAP plots of single cells of IVF early and late 2cell embryos. The fraction of embryos for which two cells are assigned to the same or different clusters are coloured in the bar graph. Bottom, violin plots showing the major ZGA score. Early 2cell (H3K27ac, 166; H3K4me3, 138); late 2cell (H3K27ac, 114; H3K4me3, 106). h, Linked dot plots of major ZGA scores for cells from the same IVF embryo, with the black line linking the average scores. P values were calculated using two-sided Wilcoxon tests (b,c,e–h).
