Fig. 4: Transcriptomic similarity between CD32⁺ cells and AGM-derived HECs.

a, A heatmap showing a selection of DEGs in CD34⁺CD184⁺CD73⁺DLL4⁺CD43^neg (DLL4⁺, in green) or CD34⁺CD43^negCD184^negCD73^negCD32⁺ (CD32⁺, in orange) samples isolated at day 8 of WNTd hPSC-derived haematopoietic culture. H1 hESCs, n = 3 independent (#1 in light blue, #2 in purple and #3 in yellow). Scaled rlog gene expression values are shown in rows. The colouring indicates differential expression by upregulation (red) or downregulation (blue). b, UMAP of integrated publicly available single-cell datasets (accession codes GSE135202 and GSE162950) showing cell clusters of AGM (CS10–CS16) or YS (CS11). Cells clustered at resolution 1.2. c, Feature plots showing HOXA9 and HOXA10 expression across the clusters shown in b. d, A barplot displaying the transcript per million (TPM) values for HOXA9 and HOXA10 genes analysed from the RNA-seq data of CD32⁺ cells as described in a, mean ± s.e.m. e, A heatmap visualizing the similarity scores between AGM samples from the single-cell data shown in b and annotated as HEC (red) or AEC (blue) in comparison with CD32⁺ and DLL4⁺ samples. Scale bar: Z scores of the relative Spearman coefficients. Each column is representative of a single embryonic cell scored across each population indicated by the row name. f, A scorecard dot plot showing landmark genes as reported in ref. ³⁸. Differential expression was evaluated in CDH5⁺RUNX1⁺PTPRC^neg cells that either express FCGR2B (FCGR2B > 0) or do not (FCGR2B = 0).

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