Multi-omics dissection of immune–tissue crosstalk in disease progression and tissue remodeling

Immune biology is shaped by continuous communication between immune cells and tissue-resident populations, including endothelial, epithelial, stromal, and parenchymal cells. Cytokines, chemokines, ligand–receptor interactions, extracellular vesicles, metabolic signals, and extracellular matrix components coordinate these interactions, while transcriptional, epigenetic, and metabolic reprogramming influence cellular states and responses. Persistent or dysregulated crosstalk can generate pathogenic niches that contribute to tissue injury, fibrosis, vascular remodeling, immune dysfunction, and defective repair. However, these interactions vary across tissues, cell types, disease stages, and spatial contexts, and their roles in disease progression and tissue remodeling remain incompletely understood.Recent advances in single-cell and single-nucleus sequencing, spatial transcriptomics, spatial proteomics, imaging-based profiling, and integrative multi-omics have revealed rare cell populations, transient states, anatomical niches, and regulatory networks that are obscured by bulk analyses. Despite these advances, important gaps remain in linking descriptive profiles of immune-tissue ecosystems to molecular mechanisms, functional outcomes, and therapeutically actionable vulnerabilities.This Research Topic aims to define how immune cells communicate with tissue-resident populations and how these interactions shape disease progression, tissue remodeling, and repair. We welcome studies integrating single-cell, spatial, and multi-omics data with computational modelling and experimental validation to identify cellular states, regulatory networks, signaling pathways, and molecular drivers of immune–tissue crosstalk. Particular emphasis will be placed on dynamic cellular communication across disease stages and the translation of omics-derived observations into functional or therapeutic insights.We welcome articles addressing, but not limited to, the following themes:• Single-cell and single-nucleus profiling of immune–tissue interactions, cellular states, and regulatory programs• Spatial mapping of immune niches and tissue microenvironments using spatial transcriptomics, proteomics, and imaging-based approaches• Integration of transcriptomic, epigenomic, proteomic, metabolomic, and genomic data to resolve immune–tissue networks• Cytokine and chemokine signaling, ligand–receptor interactions, extracellular vesicles, metabolic communication, and extracellular matrix-mediated signaling• Immune–stromal, immune–endothelial, immune–epithelial, and immune–parenchymal interactions in disease progression and tissue remodeling• Computational reconstruction of cellular communication using network biology, machine learning, and trajectory inference• Functional and translational validation of omics-derived mechanisms and therapeutic vulnerabilitiesWe welcome Original Research, Review, Mini-Review, Perspective, and Methods articles.Frontiers' journals require that manuscripts primarily comprising solely of bioinformatics analyses, computational studies of public data, or findings from Mendelian Randomisation studies must include appropriate validation. Acceptable forms of validation include:1. independent clinical or patient cohorts2. biological validation, either in vitro or in vivoManuscripts lacking such validation may risk being considered unsuitable for publication, as they do not meet the required evidence standards necessary for scientific conclusions. Topic editors: Yuyuan Zhang, Lei Li, Hanling Wang Source: https://www.frontiersin.org/research-topics/86487/multi-omics-dissection-of-immune-tissue-crosstalk-in-disease-progression-and-tissue-remodeling