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Figure 1—figure supplement 1. (A). UMAP of 13hpf neural clusters. (B). Dot plot showing the expression of the top five enriched genes in each cluster. (C, D). Feature plots showing the expressing of sox3 (C) and neurod4 (D). (E-L). Expression of rhombomere-specific genes are shown as feature plots (left panels) and violin plots (right panels). (M-P). Feature plots showing the expression of dorsoventral marker genes. (Q-T). Hybridization chain reaction (HCR) analysis of rhombomere-restricted gene expression in 13hpf wild-type zebrafish embryos. Embryos are shown in dorsal view with anterior to the top. FB = forebrain, MB = midbrain, MHB = midbrain-hindbrain boundary, r=rhombomere, CHB = caudal hindbrain, SC = spinal cord. Scale bar in (Q-T) = 100 um.