{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Kanellakis NI"],"funding":["John Fell Fund, University of Oxford","Chinese Academy of Medical Sciences Initiative for Innovative Medicine"],"pagination":["2500010"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12256804"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["66(1)"],"pubmed_abstract":["<h4>Background</h4>Pleural infection is a complex disease with poor clinical outcomes and increasing incidence worldwide, yet its biological endotypes remain unknown.<h4>Methods</h4>We analysed 80 pleural fluid samples from the PILOT study, a prospective study on pleural infection, using unlabelled mass spectrometry. A total of 449 proteins were retained after filtering. Unsupervised hierarchical clustering and Uniform Manifold Approximation and Projection analyses were used to cluster samples and pathway analysis was performed to identify the biological processes. Protein signatures as identified by the pathway analysis were compared to microbiology as defined by 16S rRNA next-generation sequencing. Spearman and exact Fischer's methods were used for correlation assessment.<h4>Results</h4>"],"journal":["The European respiratory journal"],"pubmed_title":["Pleural fluid proteomics from patients with pleural infection shows signatures of diverse neutrophilic responses: The Oxford Pleural Infection Endotyping Study (TORPIDS-2)."],"pmcid":["PMC12256804"],"funding_grant_id":["2018-I2M-2-002","0009688"],"pubmed_authors":["Cano-Gamez K","Dong T","Knight JC","Fischer R","Kanellakis NI","Whalley JP","Vendrell I","Rahman NM","Elsheikh A","Manoharan N","Zhang Z","Antoun E","Berridge G","Chu J","Corcoran JP"],"additional_accession":[]},"is_claimable":false,"name":"Pleural fluid proteomics from patients with pleural infection shows signatures of diverse neutrophilic responses: The Oxford Pleural Infection Endotyping Study (TORPIDS-2).","description":"<h4>Background</h4>Pleural infection is a complex disease with poor clinical outcomes and increasing incidence worldwide, yet its biological endotypes remain unknown.<h4>Methods</h4>We analysed 80 pleural fluid samples from the PILOT study, a prospective study on pleural infection, using unlabelled mass spectrometry. A total of 449 proteins were retained after filtering. Unsupervised hierarchical clustering and Uniform Manifold Approximation and Projection analyses were used to cluster samples and pathway analysis was performed to identify the biological processes. Protein signatures as identified by the pathway analysis were compared to microbiology as defined by 16S rRNA next-generation sequencing. Spearman and exact Fischer's methods were used for correlation assessment.<h4>Results</h4>","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Jul","modification":"2026-07-15T12:10:10.639Z","creation":"2026-07-04T03:12:16.026Z"},"accession":"S-EPMC12256804","cross_references":{"pubmed":["40246538"],"doi":["10.1183/13993003.00010-2025"]}}