ArticlePloS one2024
Quantification of fibrosis extend and airspace availability in lung: A semi-automatic ImageJ/Fiji toolbox.
Article in PloS one, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- Quantitative Histomorphometric Analysis of Collagen Bundles in Masson's Trichrome Stained Rat (Health science reports · 2026Article
- FibroTrack: a standalone deep learning platform for automated fibrosis quantification in muscle and cardiac histology.Skeletal muscle · 2026Article
- Article
- Interruption of intermittent hypoxia attenuates the severity of pulmonary fibrosis in male mice.Physiological reports · 2025Article
- Identification of early genes in the pathophysiology of fibrotic interstitial lung disease in a new model of pulmonary fibrosis.Cellular and molecular life sciences : CMLS · 2025Article
- Quantification and characterization of lung fibrosis in ARDS patients using picrosirius red staining.Frontiers in medicine · 2025Article
- Genome-Wide Association Study on Cowpea seed coat color using RGB images.Molecular breeding : new strategies in plant improvement · 2024Article
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Authors and funding
6 authors.
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Abstract
The evaluation of the structural integrity of mechanically dynamic organs such as lungs is critical for the diagnosis of numerous pathologies and the development of therapies. This task is classically performed by histology experts in a qualitative or semi-quantitative manner. Automatic digital image processing methods appeared in the last decades, and although immensely powerful, tools are highly specialized and lack the versatility required in various experimental designs. Here, a set of scripts for the image processing software ImageJ/Fiji to easily quantify fibrosis extend and alveolar airspace availability in Sirius Red or Masson's trichrome stained samples is presented. The toolbox consists in thirteen modules: sample detection, particles filtration (automatic and manual), border definition, air ducts identification, air ducts walls definition, parenchyma extraction, MT-staining specific pre-processing, fibrosis detection, fibrosis particles filtration, airspace detection, and visualizations (tissue only or tissue and airspace). While the process is largely automated, critical parameters are accessible to the user for increased adaptability. The modularity of the protocol allows for its adjustment to alternative experimental settings. Fibrosis and airspace can be combined as an evaluation of the structural integrity of the organ. All settings and intermediate states are saved to ensure reproducibility. These new analysis scripts allow for a rapid quantification of fibrosis and airspace in a large variety of experimental settings.
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