ArticleBioinformatics (Oxford, England)2020
COMUNET: a tool to explore and visualize intercellular communication.
Article in Bioinformatics (Oxford, England), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Article
- Differential cellular communication inference framework for large-scale single-cell RNA-sequencing data.NAR genomics and bioinformatics · 2025Article
- Advances and challenges in cell-cell communication inference: a comprehensive review of tools, resources, and future directions.Briefings in bioinformatics · 2025Review
- New Insights and Implications of Cell-Cell Interactions in Developmental Biology.International journal of molecular sciences · 2025Review
- An integrated approach identifies the molecular underpinnings of murine anterior visceral endoderm migration.Developmental cell · 2024Article
- The diversification of methods for studying cell-cell interactions and communication.Nature reviews. Genetics · 2024Review
- CPPLS-MLP: a method for constructing cell-cell communication networks and identifying related highly variable genes based on single-cell sequencing and spatial transcriptomics data.Briefings in bioinformatics · 2024Article
- Sctensor detects many-to-many cell-cell interactions from single cell RNA-sequencing data.BMC bioinformatics · 2023Article
- scDiffCom: a tool for differential analysis of cell-cell interactions provides a mouse atlas of aging changes in intercellular communication.Nature aging · 2023Article
- ESICCC as a systematic computational framework for evaluation, selection, and integration of cell-cell communication inference methods.Genome research · 2023Article
- exFINDER: identify external communication signals using single-cell transcriptomics data.Nucleic acids research · 2023Article
- Dysregulated ligand-receptor interactions from single-cell transcriptomics.Bioinformatics (Oxford, England) · 2022Article
- The role of cell geometry and cell-cell communication in gradient sensing.PLoS computational biology · 2022Article
- Computational exploration of cellular communication in skin from emerging single-cell and spatial transcriptomic data.Biochemical Society transactions · 2022Review
- The landscape of cell-cell communication through single-cell transcriptomics.Current opinion in systems biology · 2021Article
- Time-resolved single-cell analysis of Brca1 associated mammary tumourigenesis reveals aberrant differentiation of luminal progenitors.Nature communications · 2021Article
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2 authors.
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Abstract
motivationIntercellular communication plays an essential role in multicellular organisms and several algorithms to analyze it from single-cell transcriptional data have been recently published, but the results are often hard to visualize and interpret.
resultsWe developed Cell cOmmunication exploration with MUltiplex NETworks (COMUNET), a tool that streamlines the interpretation of the results from cell-cell communication analyses. COMUNET uses multiplex networks to represent and cluster all potential communication patterns between cell types. The algorithm also enables the search for specific patterns of communication and can perform comparative analysis between two biological conditions. To exemplify its use, here we apply COMUNET to investigate cell communication patterns in single-cell transcriptomic datasets from mouse embryos and from an acute myeloid leukemia patient at diagnosis and after treatment. AVAILABILITY AND IMPLEMENTATION: Our algorithm is implemented in an R package available from https://github.com/ScialdoneLab/COMUNET, along with all the code to perform the analyses reported here. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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