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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of <t>Spp1,</t> Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.
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(A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of Spp1, Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.

Journal: bioRxiv

Article Title: The Old Genetically Heterogeneous Mouse Model Recapitulates Chronic and Persistent Idiopathic Pulmonary Fibrosis with Strong Senescence Signatures

doi: 10.1101/2025.07.22.665978

Figure Lengend Snippet: (A) Senescent genes identified among the DEGs at D24 from the SEN MAYO panel. (A-i) Leading edge genes identified in the SEN MAYO panel at D72. (B) Venn diagram indicating an overlap of DEGs between C57BL/6J and HET3 mice using the SEN MAYO senescence gene set. 11 genes from the SEN MAYO panel were found to be present in both sets. C57BL/6J data re-analyzed from . (B-i) Venn diagram comparing genes from Bleomycin-treated mice at D24 and D72 (3.5 mg/kg) with SEN MAYO senescence gene panel and Human IPF data. Data was re-analyzed from . (C, C-i) Gene expression of Spp1, Igf1 and Il6 of sham and bleomycin-treated mice. Rpl13a was used as housekeeping control. Significance calculated using unpaired t-test; data represented as mean ± SEM at D24 and D72. (D) Representative IHC images at D24 and D72 of sham and bleomycin-treated mice stained for SPP1. Scale bar = 50 um. (D-i) Spp1 positive cell quantification at D24 and (D-ii) D72. Data represented as mean of four different fields of view per mouse ± SEM, unpaired t-test, *p ≤ 0.05, ** p ≤ 0.002, ns ≥ 0.05. (E) Validation of Spp1 expression data via spatial transcriptomic analysis in mouse IPF samples. Mouse samples with IPF showcase higher expression of Spp1. (E-i) Validation of SPP1 expression in human IPF samples. Data was re-analyzed from Franzen et al., 2024 for both human and mouse tissues. IPF = Freshly frozen tissue. IPF lung tissue collected with severe tissue remodeling. Control = Healthy lung tissue no known evidence of lung disease.

Article Snippet: Rabbit anti-Spp1 primary antibody (Proteintech, cat no. 22952-1-AP) was used at a 1:300 dilution overnight at 4°C.

Techniques: Gene Expression, Control, Staining, Biomarker Discovery, Expressing