Fig. 2: Localized gene expression patterns in the developing brain.
From: Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
a, Schematic (left) and normalized gene expression spatial plot (right) of selected genes (highlighted in Fig. 1f) in the 3D brain of E8.5 embryo1, E9.0 and E9.5 (array E9.5_3). Each dot represents a single bead. b, Spatial plot of RNA velocity in the E9.5 (array E9.5_3) brain region. Vector direction indicates the trajectory and length denotes the magnitude. Low-velocity regions are indicated as R1, R2, R3 and R4. R1, neural ridge prosencephalon; R2, telencephalon–diencephalon boundary; R3, diencephalon–mesencephalon boundary; R4: mesencephalon–hindbrain boundary; and R5, hindbrain–spinal cord boundary. c, Spatial plot showing the brain boundaries (top) and top enriched spatially differentially expressed genes along the R2, R3 and R4 brain boundaries (represented as row z-score-normalized expression) at E9.5 (array E9.5_3). The full list of genes can be found in Supplementary Table 5. Scale bar for all plots, 50 µm. C, caudal; D, dorsal; R, rostral; V, ventral.
