Extended Data Fig. 9: Homogeneity in Hox transcript profiles for individual gastruloids.
From: Multi-axial self-organization properties of mouse embryonic stem cells into gastruloids
a, PCA based on Hox-transcript datasets only, extracted from individually sequenced gastruloids across time points (10 individual organoids per time point, representing independent biological replicates). The analysis was carried out using the log2-transformed FPKM+1 value of all 39 Hox genes. Replicate batches of organoids primarily cluster according to their age at collection. The clustering revealed the low sample-to-sample variation. however, replicates were clearly separated by the temporal parameter, representing 93.6% of total sample variation. b, Comparison of Hoxa (top) and Hoxd (bottom) gene-expression profiles among individual gastruloids confirmed the low inter-sample variation among time points, illustrated with the 120 h AA condition. c, WISH of 168 h AA gastruloids showing the expression of different Hoxa paralogues. The proportion of gastruloids displaying the reported expression pattern is shown in the upper right corner of the image, expressed as a fraction of the total number. Experimental statistics are provided in Supplementary Information dataset 3. Scale bar, 100 µm.
