TY - JOUR
T1 - scDiffCom
T2 - a tool for differential analysis of cell–cell interactions provides a mouse atlas of aging changes in intercellular communication
AU - Lagger, Cyril
AU - Ursu, Eugen
AU - Equey, Anaïs
AU - Avelar, Roberto A.
AU - Pisco, Angela Oliveira
AU - Tacutu, Robi
AU - de Magalhães, João Pedro
N1 - Publisher Copyright:
© 2023, The Author(s).
PY - 2023/11/1
Y1 - 2023/11/1
N2 - Dysregulation of intercellular communication is a hallmark of aging. To better quantify and explore changes in intercellular communication, we present scDiffCom and scAgeCom. scDiffCom is an R package, relying on approximately 5,000 curated ligand–receptor interactions, that performs differential intercellular communication analysis between two conditions from single-cell transcriptomics data. Built upon scDiffCom, scAgeCom is an atlas of age-related cell–cell communication changes covering 23 mouse tissues from 58 single-cell RNA sequencing datasets from Tabula Muris Senis and the Calico murine aging cell atlas. It offers a comprehensive resource of tissue-specific and sex-specific aging dysregulations and highlights age-related intercellular communication changes widespread across the whole body, such as the upregulation of immune system processes and inflammation, the downregulation of developmental processes, angiogenesis and extracellular matrix organization and the deregulation of lipid metabolism. Our analysis emphasizes the relevance of the specific ligands, receptors and cell types regulating these processes. The atlas is available online (https://scagecom.org).
AB - Dysregulation of intercellular communication is a hallmark of aging. To better quantify and explore changes in intercellular communication, we present scDiffCom and scAgeCom. scDiffCom is an R package, relying on approximately 5,000 curated ligand–receptor interactions, that performs differential intercellular communication analysis between two conditions from single-cell transcriptomics data. Built upon scDiffCom, scAgeCom is an atlas of age-related cell–cell communication changes covering 23 mouse tissues from 58 single-cell RNA sequencing datasets from Tabula Muris Senis and the Calico murine aging cell atlas. It offers a comprehensive resource of tissue-specific and sex-specific aging dysregulations and highlights age-related intercellular communication changes widespread across the whole body, such as the upregulation of immune system processes and inflammation, the downregulation of developmental processes, angiogenesis and extracellular matrix organization and the deregulation of lipid metabolism. Our analysis emphasizes the relevance of the specific ligands, receptors and cell types regulating these processes. The atlas is available online (https://scagecom.org).
UR - http://www.scopus.com/inward/record.url?scp=85175543665&partnerID=8YFLogxK
U2 - 10.1038/s43587-023-00514-x
DO - 10.1038/s43587-023-00514-x
M3 - Article
C2 - 37919434
AN - SCOPUS:85175543665
SN - 2662-8465
VL - 3
SP - 1446
EP - 1461
JO - Nature Aging
JF - Nature Aging
IS - 11
ER -