CausalCCC

CausalCCC reconstructs intracellular causal pathways from cell-cell communication methods, enabling the exploration of cell-cell communication and identifying interactions between genes.

Key Features:

• Causal network reconstruction: Reconstructs gene-gene interaction pathways across two or more interacting cell types from single-cell or spatial transcriptomic data.
• Ligand-receptor pair computation: Internally computes L-R pairs using LIANA+ including CellphoneDBv5, SingleCellSignalR, Connectome, NATMI, and Log2FC.
• User-defined input support: Accepts user-defined L-R pairs from any cell-cell communication methods.
• Interactive visualization: Provides unique interactive visualization tools dedicated to single-cell data practitioners.

Scientific Applications:

• Extended cell-cell communication pathway analysis: Enables exploration beyond ligand-receptor scores to analyze extended CCC pathways across multiple interacting cell types.
• Integration of intracellular pathways: Integrates upstream and downstream intracellular pathways in sender and receiver cells for comprehensive cellular crosstalk analysis.
• Multi-omics data compatibility: Applicable to single-cell and spatial transcriptomic datasets.

Methodology:

CausalCCC integrates multivariate information-based inductive causation with internally computed or user-provided ligand-receptor pairs.