Extended Data Fig. 1: ETiX embryoids develop to comparable sizes and show gene expression patterns similar to natural embryos with reproducible efficiency.
From: Embryo model completes gastrulation to neurulation and organogenesis
a. Quantification of ETiX embryoid and natural embryo dimensions at comparable developmental timepoints (n=42 for ETiX4, 24 for ETiX5, 14 for ETiX6, 18 for ETiX7, 12 for ETiX8, 32 for E5.5, 18 for E6.5, 3 for E7.5, 8 for E8.0, 5 for E8.5, from 30 independent experiments). b. Quantification of ETiX embryoid formation efficiency from day 5 to day 8 (n = 1197 ETiX4, 237 for ETiX5, 170 for ETiX6, 100 for ETiX7, 40 for ETiX8, from 17 independent experiments). Error bars represent the S.E.M. c. Brightfield images of ETiX embryoids recovered after static culture at day 7 prior to dissection to highlight presence of yolk sac. Scale bar, 100 μm (n = 100 for ETiX7, from 17 independent experiments) d,e. Separated UMAPs of natural embryos (d) and ETiX embryoids (e) analysed by inDrops scRNA-seq. f. Stacked column graph binning all sequenced cells in natural embryos and ETiX embryoids according to germ layer and embryonic and extraembryonic origin at indicated timepoints (inDrops scRNA-seq). g. Stacked column graph highlighting the proportions of tissue types that emerge during natural embryo and ETiX embryoid development (inDrops scRNA-seq). h. Pearson correlation matrices showing global level of similarity across all identified tissues in natural embryos (rows) in comparison to ETiX embryoids (columns) (inDrops scRNA-seq). i. Pairwise visualizations of cell-type proportions between natural embryos and ETiX embryoids (inDrops scRNA-seq)
