ArticleBMC bioinformatics2023
Sctensor detects many-to-many cell-cell interactions from single cell RNA-sequencing data.
Article in BMC bioinformatics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- PlantCCC prioritizes context-specific candidate ligand-receptor communication patterns in plant spatial transcriptomics.Plant molecular biology · 2026Article
- Advances in single-cell and spatial multi-omics for plant development and stress responses.Plant diversity · 2026Review
- Identifying condition-related cell-cell communication events using supervised tensor analysis.American journal of human genetics · 2026Article
- Tracing cell communication programs across conditions at single cell resolution with CCC-RISE.bioRxiv : the preprint server for biology · 2026Article
- Cell Type Specific Inference of Perturbations in Synaptic Communication with MultiNeuronChat.bioRxiv : the preprint server for biology · 2025Article
- CELLetter: leveraging large language model and dual-stream network to identify context-specific ligand-receptor interactions for cell-cell communication analysis.Briefings in bioinformatics · 2025Article
- Cell-cell interactions as predictive and prognostic markers for drug responses in cancer.Genome medicine · 2025Review
- Unlocking biological insights from differentially expressed genes: Concepts, methods, and future perspectives.Journal of advanced research · 2025Review
- Hi-C3: a statistical inference-based model for reconstructing higher-order cell-cell communication networks.Briefings in bioinformatics · 2025Article
- Dissecting crosstalk induced by cell-cell communication using single-cell transcriptomic data.Nature communications · 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
- Cell-cell communication: new insights and clinical implications.Signal transduction and targeted therapy · 2024Review
- scHyper: reconstructing cell-cell communication through hypergraph neural networks.Briefings in bioinformatics · 2024Article
- The diversification of methods for studying cell-cell interactions and communication.Nature reviews. Genetics · 2024Review
- SEGCECO: Subgraph Embedding of Gene expression matrix for prediction of CEll-cell COmmunication.Briefings in bioinformatics · 2024Article
- ESICCC as a systematic computational framework for evaluation, selection, and integration of cell-cell communication inference methods.Genome research · 2023Article
- Defining and identifying cell sub-crosstalk pairs for characterizing cell-cell communication patterns.Scientific reports · 2023Article
- DiSiR: fast and robust method to identify ligand-receptor interactions at subunit level from single-cell RNA-sequencing data.NAR genomics and bioinformatics · 2023Article
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3 authors.
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Abstract
backgroundComplex biological systems are described as a multitude of cell-cell interactions (CCIs). Recent single-cell RNA-sequencing studies focus on CCIs based on ligand-receptor (L-R) gene co-expression but the analytical methods are not appropriate to detect many-to-many CCIs.
resultsIn this work, we propose scTensor, a novel method for extracting representative triadic relationships (or hypergraphs), which include ligand-expression, receptor-expression, and related L-R pairs.
conclusionsThrough extensive studies with simulated and empirical datasets, we have shown that scTensor can detect some hypergraphs that cannot be detected using conventional CCI detection methods, especially when they include many-to-many relationships. scTensor is implemented as a freely available R/Bioconductor package.
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