Fig. 3: Consensus spatial domain detection of ST spots reveals spatiotemporal changes during retinal development.

a UMAP plot of gene expression profiles using ST spots from all Visium slices. The spots are colored by spatial domain annotations (D1–D9). b Heatmap illustrating the enriched cell types associated with each spatial domain. AC amacrine cell, BC bipolar cell, HC horizontal cell, RGC retinal ganglion cell, RPC retinal progenitor cell, AC-HC Precur, amacrine-horizontal precursor, BC-Photo Precur bipolar-photoreceptor precursor. c Spatial distributions of each spatial domain, related to the radial sublayer (top) and absolute tangential angle (bottom). n = 1541 spots were examined. For box plots, boxes represent the interquartile range (25th to 75th percentiles), center lines indicate medians, and whiskers extend to the minima and maxima. d Visualization on the spatial distributions of spatial domains at PCW17. Scale bar, 200 μm. e The four gene modules (M1–M4) identified by WGCNA. For each gene module, the most enriched biological function, and the enrichment in each spatial domain are shown. n = 1541 spots were examined. For box plots, boxes represent the interquartile range (25–75th percentiles), center lines indicate medians, and whiskers extend to the minima and maxima. f Visualization on the spatial distributions of gene modules at PCW17. Scale bar, 200 μm.