Extended Data Fig. 1: Differential cadherin code in ETX-embryo and natural embryo.
From: Stem cell-derived synthetic embryos self-assemble by exploiting cadherin codes and cortical tension
(a) UMAP dimensional reduction shows Cdh1, Cdh3 and Cdh6 expression profile in different clusters as indicated by dashed lines. Each dot represents a single cell that is color-coded by sample type. (b) Heatmap showing average expression of cadherin and protocadherin related genes revealed by scRNA-seq in natural embryos (NE, n = 50) collected at 4.5, 5.5 and 6.5 days after fertilization and well-sorted ETX embryos (n = 50) at 4, 5, 6 days of culture. (c) Colonies of cultured ES and TS cells stained to reveal E-cadherin (green) and P-cadherin (red). Quantifications showing the mean intensity (A.U.) of E-cadherin or P-cadherin at cell-cell junctions. 20 colonies from 3 different experiments were selected for quantification. Scale bars represent 100 μm. Data are presented as mean ± SD. Statistics calculated by unpaired two-tailed Student’s t test. (d) Natural embryos (E5.5) and ETX embryos (Day 4) stained to reveal E-cadherin (green) and P-cadherin (red). Magnified insets show E- or P-cadherin staining in ExE and EPI compartments in natural embryos, TS and ES compartments in ETX embryos. Quantifications showing the mean intensity (A.U.) of E-cadherin or P-cadherin at cell-cell junctions. n = 20 ETX embryos and n = 19 natural embryos were used for quantification. Data are presented as mean ± SD. Statistics calculated by unpaired two-tailed Student’s t test. Scale bars represent 100 μm (main Figure) and 20μm (inset). (e) Representative images of E4.5 chimeras (8-cell stage embryos aggregated with Cdh6 or (f) Cdh3 OE ES stained for RFP (magenta), Sox17 (green), and DAPI (grey). Experiments were repeated 3 times. Scale bars represent 50 μm. Zoomed images are of regions indicated by dashed lines (scale bars represent 10 μm). Source numerical data are available in source data.
