LIANA+ provides an all-in-one framework for cell–cell communication inference

The growing availability of single-cell and spatially resolved transcriptomics has led to the development of many approaches to infer cell-cell communication, each capturing only a partial view of the complex landscape of intercellular signalling. Here we present LIANA+, a scalable framework built around a rich knowledge base to decode coordinated inter- and intracellular signalling events from single- and multi-condition datasets in both single-cell and spatially resolved data. By extending and unifying established methodologies, LIANA+ provides a comprehensive set of synergistic components to study cell-cell communication via diverse molecular mediators, including those measured in multi-omics data. LIANA+ is accessible at https://github.com/saezlab/liana-py with extensive vignettes ( https://liana-py.readthedocs.io/ ) and provides an all-in-one solution to intercellular communication inference.

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Publication Details

Journal
Nature Cell Biology
Published
2024-09-01
DOI
https://doi.org/10.1038/s41556-024-01469-w
Citations
167
Primary Topic
Molecular Communication and Nanonetworks
Type
article
Field-Weighted Citation Impact
30.62

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article

LIANA+ provides an all-in-one framework for cell–cell communication inference

Julio Sáez-Rodríguez, Pablo Rodríguez-Mier, Aurélien Dugourd, Sebastian Lobentanzer et al.
167 citations
Nature Cell Biology
Molecular Communication and Nanonetworks
30.62
article

LIANA+ provides an all-in-one framework for cell–cell communication inference

Julio Sáez-Rodríguez, Pablo Rodríguez-Mier, Aurélien Dugourd, Sebastian Lobentanzer, Ricardo O. Ramirez Flores, Jovan Tanevski, Elias Farr, Daniel Dimitrov, Pau Badia-i-Mompel, Philipp Schäfer
article en
167 citations

Abstract

The growing availability of single-cell and spatially resolved transcriptomics has led to the development of many approaches to infer cell-cell communication, each capturing only a partial view of the complex landscape of intercellular signalling. Here we present LIANA+, a scalable framework built around a rich knowledge base to decode coordinated inter- and intracellular signalling events from single- and multi-condition datasets in both single-cell and spatially resolved data. By extending and unifying established methodologies, LIANA+ provides a comprehensive set of synergistic components to study cell-cell communication via diverse molecular mediators, including those measured in multi-omics data. LIANA+ is accessible at https://github.com/saezlab/liana-py with extensive vignettes ( https://liana-py.readthedocs.io/ ) and provides an all-in-one solution to intercellular communication inference.

Nature Cell BiologyVol. 26(9)
European Bioinformatics Institute (GB), Heidelberg University (DE), University Hospital Heidelberg (DE)
Pfizer, European Commission, Deutsche Forschungsgemeinschaft
Openalex Percentile: Top 0%
Molecular Communication and Nanonetworks
30.62
DOIOpen Access PDFOpenAlex
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