Fig. 2

Microwell and 96-well hCOs show similar general developmental capacities. a–d n = 3 biological replicates for each condition with 4–10 hCOs comprising each replicate. a PCA of gene expression during hCO differentiation at days 10, 20 and 40. b The number of differentially expressed genes during hCO differentiation with false discovery rate (FDR) p-value < 0.05 and log₂ (fold change) (FC) ≥|1.5|. c The top 35 differentially expressed genes between days 10 and 40 with FDR p-value < 0.05, log₂(FC) ≥|1.5| and maximum mean reads per kilobase of transcript per million mapped reads (max mean RPKM) ≥ 10. d Top biological functions between days 40 and 10 with z-score ≥|2| and FDR p-value < 0.00001 identified through IPA analysis. Differentially expressed genes with FDR p-value < 0.05, log₂ (FC) ≥|1.5| and max mean RPKM ≥ 10 were used in this analysis. 809 (96-well), 877 (Round), 621 (Butterfly), 807 (Peanut) and 788 (c) genes met this criteria