Fig. 6

Spatial domains defined by reclustering of cells based on latent vectors recovered by DeepLinc. A, B The UMAP graph and spatial locations of different spatial domain clusters and cell types. The spatial domain clusters were acquired by the k-means method with latent vectors of the single cells. C, D Spatially specific gene expression signatures of homologous cells reclustered by DeepLinc. The heatmaps show the differential expression of domain-specific genes. The dot size represents the significance of the one-versus-rest test (Mann–Whitney U test). The color indicates the median value of the normalized z-scores of gene expression in each cluster