GenPALS Seminar Presenter: Suoqin Jin
Author of this page: Samuel Morabito
Inference and analysis of cell-cell communication using CellChat
Dr. Suoqin Jin gave a fantastic talk discussing CellChat, a tool for analyzing cell-cell commmunication using single-cell transcriptomics data. CellChat is a powerful analysis toolkit in R that allows for the visualization and analysis of cell-cell communication in discrete cell clusters as well as continuous cell states and devlopmental trajectories. In their recent [Nature Communications publicaiton])(https://www.nature.com/articles/s41467-021-21246-9), Suoqin and colleagues present the CellChat method itself and a real-world application in human skin datasets.
The following figure shows many different use cases for Cell-Chat:
Getting Started with CellChat
The CellChat github is an extremely helpful resource for getting started with CellChat. The following links lead to different cellchat tutorials:
- Full tutorial for CellChat analysis of a single dataset with detailed explanation of each function
- Full tutorial for comparison analysis of multiple datasets
- Comparison analysis of multiple datasets with different cellular compositions
- Interface with other single-cell analysis toolkits (e.g., Seurat, SingleCellExperiment, Scanpy)
- Tutorial for updating ligand-receptor database CellChatDB
