Extended Data Fig. 3: Measurement of generation of off-target cells in human blastocyst-like structures and naive human pluripotent stem cells.
From: Human blastoids model blastocyst development and implantation
a, b. UMAP of clusters formed from cells isolated from blastocyst-like structures (high-resolution clustering of 1, x50 as compared to Fig. 2b) (a) and displaying the expression levels of genes specific for amnion lineage (b). c. Origin of the cells composing cluster 11. d-h. UMAPs of naive hPSCs, primed hPSCs, cells isolated from blastocyst-like structures and cells isolated from a CS7 staged human embryo. d. Coloration of embryo cells based on previously proposed annotations39. e. Coloration of stem cells based on their origin. f. Display of the expression levels of genes specific for each of the three blastocyst lineages (EPI - Epiblast, TE - Trophectoderm, and PrE- Primitive endoderm). g. Coloration of individual cells based on their unsupervised cluster affiliation. h. Coloration of the cells previously identified as cluster 11 (see a, b). i. Quantification of the percentage of cells identified as abnormal based on the location in the UMAP in h (top) and on the cells annotations (bottom) for both naive hPSCs (left) and cells isolated from blastocyst-like structures (right). Similar results were obtained based on the location in the UMAP in (Extended Data Fig. 2c-e). j. Heatmap of previously proposed markers of different lineages differentially expressed in cells from blastocyst-like structures and gastrulation-stage embryo10.
