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CellPhoneDB: inferring cell–cell communication from combined expression of multi-subunit ligand–receptor complexes

Nature Protocols · 2020 · Vol. 15(4) · pp. 1484–1506

Mirjana Efremova✉(Wellcome Sanger Institute)Miquel Vento-Tormo(Software (Spain))Sarah A. Teichmann(University of Cambridge)Roser Vento‐Tormo(Wellcome Sanger Institute)

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Single-cell and spatial transcriptomics T-cell and B-cell Immunology Immunotherapy and Immune ResponsesComputational biologyCellProtein subunitCell biologyLigand (biochemistry)ReceptorBiologyExpression (computer science)ChemistryGenetics

MeSH terms

AnimalsCell CommunicationHumansLigandsReceptors, Cell SurfaceSoftwareSignal TransductionSequence Analysis, RNAGene Expression ProfilingMiceSingle-Cell AnalysisTranscriptome

Funding

Wellcome

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3,514

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174.38

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References

Spatial reconstruction of single-cell gene expression data

Nature Biotechnology · 2015 · 7,447 citations

Pfam: the protein families database

Nucleic Acids Research · 2013 · 6,474 citations

Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks

Genome Research · 2003 · 53,132 citations

Single-Cell Transcriptional Profiling Reveals Cellular Diversity and Intercommunication in the Mouse Heart

Cell Reports · 2018 · 578 citations

SCANPY: large-scale single-cell gene expression data analysis

Genome biology · 2018 · 8,867 citations

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