Welcome to CCC-Catalog!
CCC-Catalog is designed as a comprehensive hub for cell-cell communication (CCC) analysis using single-cell RNA sequencing and spatial transcriptomics data.
It offers an extensive, searchable catalog of CCC tools and resources, tailored to users' specific needs and preferences.
Additionally, it provides an overview of the latest literature on CCC analysis, including references to recent reviews, comparisons, and benchmarking studies.
Find a CCC Resource
Visit the
Resources for a detailed catalog of CCC resources, including all major ligand-receptor databases and more.
Use filters to find resources based on:
- Species (e.g. Human, Mouse, Rat, Zebrafish)
- Type and number of annotated interactions (intercellular or intracellular signaling)
- Availability of protein complex information
- And much more
Find a CCC Tool
The
Tools offers a complete catalog of CCC tools. Narrow your search based on:
- Input data type (scRNA-seq, spot-based resolution spatial transcriptomics, single-cell resolution spatial transcriptomics)
- Preferred programming language (R, Python, etc.) and software format (command line tool, library, webapp, etc.)
- Types of CCC signaling analyzed (intercellular, intracellular, or both)
- Visualization options (e.g., circos plots, heatmaps, Sankey plots)
- Advanced features (e.g., support for multi-condition datasets, time series data)
- And much much more
Literature on CCC Analysis
The
Literature page includes summaries of the most up-to-date studies on CCC tools and resources, covering
review articles, comparison studies, and benchmarking analyses.
Help Us Expand!
Are you a developer of a new CCC tool, resource, or publication? Or do you think any key CCC resources, tools, or literature are missing?
Visit our
Contribute page and let us know!
Citing CCC-Catalog
Giulia Cesaro, James Shiniti Nagai, Nicolò Gnoato, Alice Chiodi, Gaia Tussardi, Vanessa Klöker, Carmelo Vittorio Musumarra, Ettore Mosca, Ivan G Costa, Barbara Di Camillo, Enrica Calura, Giacomo Baruzzo,
Advances and challenges in cell-cell communication inference: a comprehensive review of tools, resources, and future directions,
Briefings in Bioinformatics, Volume 26, Issue 3, May 2025, bbaf280,
DOI: 10.1093/bib/bbaf280