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Radioproteomics stratifies molecular response to antifibrotic treatment in pulmonary fibrosis
David Lauer, … , Britta Maurer, Janine Gote-Schniering
David Lauer, … , Britta Maurer, Janine Gote-Schniering
Published July 16, 2024
Citation Information: JCI Insight. 2024;9(15):e181757. https://doi.org/10.1172/jci.insight.181757.
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Research Article Pulmonology Therapeutics

Radioproteomics stratifies molecular response to antifibrotic treatment in pulmonary fibrosis

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Abstract

Antifibrotic therapy with nintedanib is the clinical mainstay in the treatment of progressive fibrosing interstitial lung disease (ILD). High-dimensional medical image analysis, known as radiomics, provides quantitative insights into organ-scale pathophysiology, generating digital disease fingerprints. Here, we performed an integrative analysis of radiomic and proteomic profiles (radioproteomics) to assess whether changes in radiomic signatures can stratify the degree of antifibrotic response to nintedanib in (experimental) fibrosing ILD. Unsupervised clustering of delta radiomic profiles revealed 2 distinct imaging phenotypes in mice treated with nintedanib, contrary to conventional densitometry readouts, which showed a more uniform response. Integrative analysis of delta radiomics and proteomics demonstrated that these phenotypes reflected different treatment response states, as further evidenced on transcriptional and cellular levels. Importantly, radioproteomics signatures paralleled disease- and drug-related biological pathway activity with high specificity, including extracellular matrix (ECM) remodeling, cell cycle activity, wound healing, and metabolic activity. Evaluation of the preclinical molecular response–defining features, particularly those linked to ECM remodeling, in a cohort of nintedanib-treated fibrosing patients with ILD, accurately stratified patients based on their extent of lung function decline. In conclusion, delta radiomics has great potential to serve as a noninvasive and readily accessible surrogate of molecular response phenotypes in fibrosing ILD. This could pave the way for personalized treatment strategies and improved patient outcomes.

Authors

David Lauer, Cheryl Y. Magnin, Luca R. Kolly, Huijuan Wang, Matthias Brunner, Mamta Chabria, Grazia M. Cereghetti, Hubert S. Gabryś, Stephanie Tanadini-Lang, Anne-Christine Uldry, Manfred Heller, Stijn E. Verleden, Kerstin Klein, Adela-Cristina Sarbu, Manuela Funke-Chambour, Lukas Ebner, Oliver Distler, Britta Maurer, Janine Gote-Schniering

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Figure 1

Delta radiomics uncovers heterogeneity in antifibrotic drug response.

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Delta radiomics uncovers heterogeneity in antifibrotic drug response.
(A...
(A) Experiment schematic. C57BL/6J mice with bleomycin-induced lung fibrosis received treatment with nintedanib (n = 10) or vehicle (n = 14). Lung μCT scans were acquired of each mouse before (day 7) and after treatment (day 21) for analysis of radiomic measures. The change in radiomic feature expression was expressed as delta radiomics. Lung tissue was collected 24 hours after the final treatment application for molecular analyses. (B) Heatmap displaying the results of unsupervised hierarchical clustering of Z-scored delta radiomic features (n = 244) in all mice. Treatment groups and the class of each delta radiomic variable are indicated. (C) Representative lung μCT images and matching density-masked lobes of nintedanib- and vehicle-treated mice with bleomycin-induced lung fibrosis at pre- and posttreatment levels. (D) Lung tissue density expressed as mean Hounsfield unit (HU) intensity after treatment. Unpaired Student’s t test was used to compare the groups. (E) Heatmap showing the expression profiles of the combined set of DE proteins (n = 556) in cluster 1 and cluster 2 compared with vehicle-treated mice. Log2-transformed protein expression values were Z-scored. (F) Venn diagram depicting the number of differentially expressed proteins in cluster 1 (n = 414) and cluster 2 (n = 169) compared with the vehicle group. Selected DE proteins unique to cluster 1 or cluster 2 with functions implicated in disease pathophysiology are denoted.

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