Figure 3.

Upregulated genes and cell enrichment analyses of differentiated cells from BMP4-based protocols of Io et al., Krendl et al., and Yabe et al.

(A–C) The comparisons include (A) H9_BMP4_D3 (light pink) versus H1_BAP_D8_>70 (light green), (B) H1_BAP_D8_>70 (light green) versus H9_pBAP_D3 (light blue), and (C) H9_pBAP_D3 (light blue) versus H9_BMP4_D3 (light pink). In the volcano plots, only genes with |log2fold| ≥ 1 and padj ≤ 0.05 are colored. The cell enrichment results of the upregulated genes are depicted as bar plots (color coordinated), with the top chart using the Vento-Tormo et al. (2018) dataset for enrichment analyses, the middle using the Xiang et al. (2020) dataset, and bottom using the combined Zhou et al. (2019), and Petropoulos et al. (2016) datasets (curated by Castel et al., 2020). Only the three most-enriched fetal cell types are shown here (see Figure S2 for the full cell enrichment results and Figure S3 for enrichment results that include H1_BAP_D8_<40).