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ORIGINAL RESEARCH article

Front. Toxicol.
Sec. In Vitro Toxicology
Volume 6 - 2024 | doi: 10.3389/ftox.2024.1465704

Assessment of pulmonary fibrosis using weighted gene co-expression network analysis

Provisionally accepted
  • Fraunhofer Institute for Toxicology and Experimental Medicine (FHG), Hannover, Germany

The final, formatted version of the article will be published soon.

    For many industrial chemicals toxicological data is sparse regarding several regulatory endpoints, so there is a high and often unmet demand for NAMs that allow for screening and prioritisation of these chemicals. In this proof-of-concept case study we propose multi-gene biomarkers of compounds' ability to induce lung fibrosis and demonstrate their application in vitro. For deriving these biomarkers we used weighted gene co-expression network analysis to reanalyse a study where the time-dependent pulmonary gene-expression in mice treated with bleomycin had been documented and identified eight modules of 58 to 273 genes each which were particularly activated during the different phases (inflammatory; acute and late fibrotic) of the developing fibrosis. The modules' relation to lung fibrosis was substantiated by comparison to known markers of lung fibrosis from DisGenet. Finally, we show the modules' application as biomarkers of chemical inducers of lung fibrosis based on an in vitro study of four diketones. Clear differences could be found between the lung fibrosis inducing diketones and other compounds with regard to their tendency to induce dosedependent increases of module activation as determined using a previously proposed differential activation score and the fraction of differentially expressed genes in the modules. Accordingly, this study highlights the potential use of composite biomarkers mechanistic screening for compoundinduced lung fibrosis.

    Keywords: WGCNA, Bleomycin, lung fibrosis, Diacetyl, DEG (differentially expressed gene) analysis

    Received: 16 Jul 2024; Accepted: 09 Oct 2024.

    Copyright: © 2024 Drake, Zobl and Escher. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

    * Correspondence: Christina Drake, Fraunhofer Institute for Toxicology and Experimental Medicine (FHG), Hannover, Germany

    Disclaimer: All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article or claim that may be made by its manufacturer is not guaranteed or endorsed by the publisher.