Spatial components of molecular tissue biology
Methods for profiling RNA and protein expression in a spatially resolved manner are rapidly
evolving, making it possible to comprehensively characterize cells and tissues in health and …
evolving, making it possible to comprehensively characterize cells and tissues in health and …
The diversification of methods for studying cell–cell interactions and communication
No cell lives in a vacuum, and the molecular interactions between cells define most
phenotypes. Transcriptomics provides rich information to infer cell–cell interactions and …
phenotypes. Transcriptomics provides rich information to infer cell–cell interactions and …
Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data
The growing availability of single-cell data, especially transcriptomics, has sparked an
increased interest in the inference of cell-cell communication. Many computational tools …
increased interest in the inference of cell-cell communication. Many computational tools …
Screening cell–cell communication in spatial transcriptomics via collective optimal transport
Spatial transcriptomic technologies and spatially annotated single-cell RNA sequencing
datasets provide unprecedented opportunities to dissect cell–cell communication (CCC) …
datasets provide unprecedented opportunities to dissect cell–cell communication (CCC) …
The landscape of cell–cell communication through single-cell transcriptomics
Cell–cell communication is a fundamental process that shapes biological tissue. Historically,
studies of cell–cell communication have been feasible for one or two cell types and a few …
studies of cell–cell communication have been feasible for one or two cell types and a few …
Deciphering cell–cell communication at single-cell resolution for spatial transcriptomics with subgraph-based graph attention network
The inference of cell–cell communication (CCC) is crucial for a better understanding of
complex cellular dynamics and regulatory mechanisms in biological systems. However …
complex cellular dynamics and regulatory mechanisms in biological systems. However …
Integrated intra‐and intercellular signaling knowledge for multicellular omics analysis
D Türei, A Valdeolivas, L Gul… - Molecular systems …, 2021 - embopress.org
Molecular knowledge of biological processes is a cornerstone in omics data analysis.
Applied to single‐cell data, such analyses provide mechanistic insights into individual cells …
Applied to single‐cell data, such analyses provide mechanistic insights into individual cells …
Cell–cell communication inference and analysis in the tumour microenvironments from single-cell transcriptomics: data resources and computational strategies
Carcinomas are complex ecosystems composed of cancer, stromal and immune cells.
Communication between these cells and their microenvironments induces cancer …
Communication between these cells and their microenvironments induces cancer …
Whole-body gene expression atlas of an adult metazoan
A Ghaddar, E Armingol, C Huynh, L Gevirtzman… - Science …, 2023 - science.org
Gene activity defines cell identity, drives intercellular communication, and underlies the
functioning of multicellular organisms. We present the single-cell resolution atlas of gene …
functioning of multicellular organisms. We present the single-cell resolution atlas of gene …
Context-aware deconvolution of cell–cell communication with Tensor-cell2cell
Cell interactions determine phenotypes, and intercellular communication is shaped by
cellular contexts such as disease state, organismal life stage, and tissue microenvironment …
cellular contexts such as disease state, organismal life stage, and tissue microenvironment …