Mayr, Christoph H; Simon, Lukas M; Leuschner, Gabriela; Ansari, Meshal; Schniering, Janine; Geyer, Philipp E; Angelidis, Ilias; Strunz, Maximilian; Singh, Pawandeep; Kneidinger, Nikolaus; Reichenberger, Frank; Silbernagel, Edith; Böhm, Stephan; Adler, Heiko; Lindner, Michael; Maurer, Britta; Hilgendorff, Anne; Prasse, Antje; Behr, Jürgen; Mann, Matthias; ... (2021). Integrative analysis of cell state changes in lung fibrosis with peripheral protein biomarkers. EMBO molecular medicine, 13(4), e12871. EMBO Press 10.15252/emmm.202012871
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EMBO_Mol_Med_-_2021_-_Mayr_-_Integrative_analysis_of_cell_state_changes_in_lung_fibrosis_with_peripheral_protein_biomarkers.pdf - Published Version Available under License Creative Commons: Attribution (CC-BY). Download (4MB) | Preview |
The correspondence of cell state changes in diseased organs to peripheral protein signatures is currently unknown. Here, we generated and integrated single-cell transcriptomic and proteomic data from multiple large pulmonary fibrosis patient cohorts. Integration of 233,638 single-cell transcriptomes (n = 61) across three independent cohorts enabled us to derive shifts in cell type proportions and a robust core set of genes altered in lung fibrosis for 45 cell types. Mass spectrometry analysis of lung lavage fluid (n = 124) and plasma (n = 141) proteomes identified distinct protein signatures correlated with diagnosis, lung function, and injury status. A novel SSTR2+ pericyte state correlated with disease severity and was reflected in lavage fluid by increased levels of the complement regulatory factor CFHR1. We further discovered CRTAC1 as a biomarker of alveolar type-2 epithelial cell health status in lavage fluid and plasma. Using cross-modal analysis and machine learning, we identified the cellular source of biomarkers and demonstrated that information transfer between modalities correctly predicts disease status, suggesting feasibility of clinical cell state monitoring through longitudinal sampling of body fluid proteomes.
Item Type: |
Journal Article (Original Article) |
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Division/Institute: |
04 Faculty of Medicine > Department of Dermatology, Urology, Rheumatology, Nephrology, Osteoporosis (DURN) > Clinic of Rheumatology, Clinical Immunology and Allergology |
UniBE Contributor: |
Maurer, Britta |
Subjects: |
600 Technology > 610 Medicine & health |
ISSN: |
1757-4684 |
Publisher: |
EMBO Press |
Language: |
English |
Submitter: |
Brigitte Isenschmid |
Date Deposited: |
28 Dec 2021 10:20 |
Last Modified: |
05 Dec 2022 15:55 |
Publisher DOI: |
10.15252/emmm.202012871 |
PubMed ID: |
33650774 |
Uncontrolled Keywords: |
biomarker data integration fibrosis proteomics single-cell RNA-seq |
BORIS DOI: |
10.48350/161818 |
URI: |
https://boris.unibe.ch/id/eprint/161818 |
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