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Showing 1–6 of 6 results
Advanced filters: Author: Ruoxuan Dai Clear advanced filters

  • Spatial epigenomics (SE) data suffer from high sparsity. The authors present SPEED, a deep matrix factorization framework that leverages atlas-level single-cell epigenomic data to denoise SE data, showcasing a promising toolkit for SE analysis.

    • Shuyan Wang
    • Hao Xu
    • Kun Qu
    Research
    Nature Computational Science
    P: 1-13

  • Adipocyte plasticity during injury repair is debated. Here, the authors find that injury causes temporary adipocyte migration, but without lineage conversion to myofibroblasts. Distinct migration patterns, transcriptomics and ECM depositions indicate that adipocytes, unlike fibroblasts, do not contribute to fibrotic scars.

    • Shruthi Kalgudde Gopal
    • Ruoxuan Dai
    • Yuval Rinkevich
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-16

  • Lung fibrosis development involves alveolar macrophages, with mechanisms that are incompletely understood. Here, the authors show that alveolar macrophages mediate the disassembly of pleuro-alveolar junctions, driving fibrosis via connective tissue transfer, and demonstrate that targeting this process can reverse chronic fibrosis in mice.

    • Adrian Fischer
    • Wei Han
    • Yuval Rinkevich
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-18

  • Spatiotemporal regulation of wound healing in mice and humans occurs via retinoic acid and hypoxia signalling, which regulate the differentiation of CD201+ fibroblast progenitors into proinflammatory and myofibroblast states.

    • Donovan Correa-Gallegos
    • Haifeng Ye
    • Yuval Rinkevich
    ResearchOpen Access
    Nature
    Volume: 623, P: 792-802