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Fig. 3 | Genome Biology

Fig. 3

From: De novo reconstruction of cell interaction landscapes from single-cell spatial transcriptome data with DeepLinc

Fig. 3

Landscapes of cell interactions reconstructed by DeepLinc. A–D Evaluation of the over- or under-representation of particular types of interactions in the original cell adjacency networks (left) and in the reconstructed cell interaction networks (right) with the 4 datasets. The results are represented as dot heatmaps showing the interaction relationships between cell types. Dot size represents the connectivity between two cell types, calculated by the number of connections divided by the product of the cell numbers. The color of the dots represents significance (−log10P) determined by comparing with the permutation test, in which positive values indicate enrichment and negative values indicate depletion. E Original and reconstructed cell interaction networks in a representative tissue section from MERFISH dataset of hypothalamic preoptic area. The red box indicates a microglia cell with distal interactions with many other cells in the reconstructed networks

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