Fig. 6

Species-specific transcriptional regulation during thymocyte development between humans and mice. a Two-dimensional representation of cells via UMAP, as colored by species (left), cluster identity in humans (middle) and cluster identity in mice (right); each dot represents one cell. b A heat map of differentially expressed genes between species, with exemplar genes labeled (right); genes in red were reported to be differentially expressed between these species, and genes in bold are discussed below. c Expression of representative genes (AEBP1, BAALC, DTX1 and GATA1) involved in the development of T cells. The value is the smoothed gene expression value. d Expression of TFs across stages in humans and mice. The color indicates the average expression value; the circle indicates the −log10 p value of TF enrichment. e The transcriptional regulatory network of Gata1, which shows the genes that are differentially expressed between species in Fig. 6b. f Gata1 ChIP-seq profiles of Skap1 gene loci. The Gata1 ChIP-seq data are from murine erythroleukemia cells (top) and ES (embryonic stem) cell-derived erythroid progenitors (middle and bottom). ChIP-seq signals were obtained from Cistrome Data Browser. g Expression of SKAP1/Skap1 in humans and mice during the development of T cells. The value is the smoothed gene expression value. h Volcano map of human and mouse thymus data. The absolute value of the fold change > 1 and p value < 0.01 are regarded as significant differences; mouse is blue and human red; the label is the gene found in Fig. 6b, and the red ones are known (AEBP1) and predicted (SKAP1) differential genes between humans and mice. RNA-seq data were obtained from ENCODE