Extended Data Fig. 3: Metabolic rewiring by dm-αKG alters the competence of nESC towards the TE fate.
a, Bar charts showing the percentage of cells from different Seurat clusters in each sample (left); and how samples contribute to Seurat clusters (right). b, Gene set enrichment analysis for differentially expressed genes between Seurat cluster C1 and C2. Shown are some significantly enriched Reactome terms. Normalised enrichment score is positive when terms are enriched in genes upregulated in C2 vs C1. c, Expression of selected lineage-specific marker genes across Seurat clusters separated according to sample type. Combinations of clusters and samples containing less than 20 cells are not shown. Dot size represents the proportion of cells in which the gene was detected, and colour indicates scaled average expression. d, Expression of selected lineage-specific marker genes across samples related to Fig. 2d. The size of the circles represents the proportion of cells in the sample with the indicated gene expression level. e, Pseudotime plots showing expression dynamics of putative early epiblast/ICM markers (KLF3, PRAP1, GDF15) also upregulated within Seurat cluster C2. Data was extracted from ref. 43. ICM: inner cell mass; EPI: epiblast; PrE: primitive endoderm; TE: trophectoderm; B1/B2: early blastocyst at B1/B2 stage.
