scDiffCom: a tool for differential analysis of cell-cell interactions provides a mouse atlas of aging changes in intercellular communication.

Lagger, Cyril ORCID: 0000-0003-1701-6896, Ursu, Eugen ORCID: 0000-0003-0788-7831, Equey, Anaïs, Avelar, Roberto A, Pisco, Angela Oliveira ORCID: 0000-0003-0142-2355, Tacutu, Robi ORCID: 0000-0001-5853-2470 and de Magalhães, João Pedro ORCID: 0000-0002-6363-2465 (2023) scDiffCom: a tool for differential analysis of cell-cell interactions provides a mouse atlas of aging changes in intercellular communication. Nature aging, 3 (11). pp. 1446-1461.

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Official URL: http://dx.doi.org/10.1038/s43587-023-00514-x

Abstract

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 ).

Item Type:	Article
Uncontrolled Keywords:	Animals, Mice, Ascomycota, Cell Communication, Down-Regulation, Aging, Female, Male, Cellular Senescence
Divisions:	Faculty of Health and Life Sciences Faculty of Health and Life Sciences > Institute of Life Courses and Medical Sciences
Depositing User:	Symplectic Admin
Date Deposited:	20 Nov 2023 15:50
Last Modified:	06 Dec 2023 10:18
DOI:	10.1038/s43587-023-00514-x
Open Access URL:	https://doi.org/10.1038/s43587-023-00514-x
Related URLs:	Author Publisher
URI:	https://livrepository.liverpool.ac.uk/id/eprint/3176910