Author:
Tsuyuzaki Koki,Ishii Manabu,Nikaido Itoshi
Abstract
Abstract
Background
Complex 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.
Results
In this work, we propose , a novel method for extracting representative triadic relationships (or hypergraphs), which include ligand-expression, receptor-expression, and related L–R pairs.
Conclusions
Through extensive studies with simulated and empirical datasets, we have shown that can detect some hypergraphs that cannot be detected using conventional CCI detection methods, especially when they include many-to-many relationships. is implemented as a freely available R/Bioconductor package.
Publisher
Springer Science and Business Media LLC
Subject
Applied Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Structural Biology