Predict ligand-target links between interacting cells using bulk or single-cell transcriptomics data. Our prior model integrates existing knowledge on signaling and gene regulatory networks, creating an extensive network of ligand-receptor-transcription factor-target signaling paths. This prior model is used to prioritize ligand-receptor interactions that might drive gene expression changes in cells of interest.

Browaeys, R., Saelens, W. & Saeys, Y. NicheNet: modeling intercellular communication by linking ligands to target genes. Nat Methods 17, 159–162 (2020).