Figure 5.

Analysis of CCC in spatially reconstructed SC data of the mouse embryo at E9.5

(A) Demonstration of the CCC analysis with SC and ST data. We employed CellChat to decipher CCC among different cell groups to compute the co-signals of ligand and receptors based on their gene expression. With the spatial distance constraint incorporated by ST data, SpatialDM detected the global LRIs and the local CCCs among individual cells.

(B) Reconstructed locations of E1. The spatially reconstructed locations of E1 were accomplished by leveraging the predicted cell-cell dissimilarities into a 2D space through the MDS algorithm.

(C) Comparison of global ligand-receptor pairs. We compared the identification of global ligand-receptor pairs using CellChat and spatialDM. Notably, CellChat exclusively employs E1’s gene expression data, while spatialDM integrates both gene expression and predicted spatial cell locations.

(D) Reference support for global ligand-receptor pairs.

(E) Reference support for local CCC.

(F) Spatial demonstration of the detected ligand-receptor interaction of LGF2-LGF2R.