Extended Data Fig. 2: Generation and analysis of isogenic Adnp knockout mouse ES cell lines.

a, Scheme depicting CRISPR–Cas9 and TALEN-induced double-stranded DNA breaks to delete the Adnp open-reading frame. TSS, transcription start site. b, PCR genotyping confirming homozygous deletion of the Adnp open-reading frame in three different mouse ES cell lines used in this study. The experiment was performed twice. c, MA plot comparing fold change (FC) in gene expression for Adnp^−/− versus Adnp^+/+ cells (y axis) with mean mRNA abundance (x axis). Representative endoderm-specific genes are highlighted in red. Dashed red lines indicate fourfold up- or downregulation. CPM, counts per million. d, Gene Ontology enrichment analysis of genes upregulated in Adnp^−/− cells. n = 3 independent biological replicates. e, Scatterplot comparing gene expression fold change upon Adnp knockout (y axis) with expression changes between extraembryonic endoderm (eXEN) and ES cells (x axis). Known key lineage markers are indicated in blue.