DNA methylation profiles in pneumonia patients reflect changes in cell types and pneumonia severity

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dc.authoridKURT, ÖZGÜR/0000-0001-5575-588X
dc.authoridKurt, Özgür/0000-0001-5575-588X
dc.authoridKöseler, Aylin/0000-0003-4832-0436
dc.authoridTURKCUER, IBRAHIM/0000-0001-8342-4615
dc.authoridSabirli, Ramazan/0000-0003-4599-5833
dc.authoridFarrell, Colin/0000-0002-3138-6108
dc.authoridGOREN, TARIK/0000-0002-8292-6717
dc.authorwosidKURT, ÖZGÜR/AAG-9543-2019
dc.authorwosidKurt, Özgür/D-2306-2015
dc.authorwosidMorselli, Marco/AAF-3182-2019
dc.authorwosidKöseler, Aylin/C-5030-2012
dc.contributor.authorMorselli, Marco
dc.contributor.authorFarrell, Colin
dc.contributor.authorMontoya, Dennis
dc.contributor.authorGören, Tarik
dc.contributor.authorSabırlı, Ramazan
dc.contributor.authorTürkçüer, İbrahim
dc.contributor.authorKurt, Özgür
dc.date.accessioned2023-03-22T19:47:25Z
dc.date.available2023-03-22T19:47:25Z
dc.date.issued2022
dc.departmentBelirleneceken_US
dc.description.abstractImmune cell-type composition changes with age, potentially weakening the response to infectious diseases. Profiling epigenetics marks of immune cells can help us understand the relationship with disease severity. We therefore leveraged a targeted DNA methylation method to study the differences in a cohort of pneumonia patients (both COVID-19 positive and negative) and unaffected individuals from peripheral blood. This approach allowed us to predict the pneumonia diagnosis with high accuracy (AUC = 0.92), and the PCR positivity to the SARS-CoV-2 viral genome with moderate, albeit lower, accuracy (AUC = 0.77). We were also able to predict the severity of pneumonia (PORT score) with an R-2 = 0.69. By estimating immune cellular frequency from DNA methylation data, patients under the age of 65 positive to the SARS-CoV-2 genome (as revealed by PCR) showed an increase in T cells, and specifically in CD8+ cells, compared to the negative control group. Conversely, we observed a decreased frequency of neutrophils in the positive compared to the negative group. No significant difference was found in patients over the age of 65. The results suggest that this DNA methylation-based approach can be used as a cost-effective and clinically useful biomarker platform for predicting pneumonias and their severity.en_US
dc.description.sponsorshipNational Institutes of Health [T32CA201160]en_US
dc.description.sponsorshipThis work was supported by the National Institutes of Health [T32CA201160].en_US
dc.identifier.doi10.1080/15592294.2022.2051862
dc.identifier.endpage1660en_US
dc.identifier.issn1559-2294
dc.identifier.issn1559-2308
dc.identifier.issue12en_US
dc.identifier.pmid35311624en_US
dc.identifier.scopus2-s2.0-85126764031en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.startpage1646en_US
dc.identifier.urihttps://doi.org/10.1080/15592294.2022.2051862
dc.identifier.urihttps://hdl.handle.net/20.500.14034/687
dc.identifier.volume17en_US
dc.identifier.wosWOS:000771276900001en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.language.isoenen_US
dc.publisherTaylor & Francis Incen_US
dc.relation.journalEpigeneticsen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectDNA methylationen_US
dc.subjectpneumoniaen_US
dc.subjectSARS-CoV-2en_US
dc.subjecttargeted bisulfite sequencingen_US
dc.subjectcell-type deconvolutionen_US
dc.subjectbiomarkersen_US
dc.subjectEpigenetic Modificationsen_US
dc.subjectCovid-19en_US
dc.subjectBlooden_US
dc.titleDNA methylation profiles in pneumonia patients reflect changes in cell types and pneumonia severityen_US
dc.typeArticleen_US

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