Publication: Investigating hepatic fibrosis heterogeneity by three-dimensional imaging in metabolic dysfunction-associated steatotic liver disease
| dc.contributor.coauthor | Yigit, Buket | |
| dc.contributor.coauthor | Ozgonul, Ekin | |
| dc.contributor.coauthor | Yaman, Omer | |
| dc.contributor.coauthor | Sipahioglu, Tarik | |
| dc.contributor.coauthor | Ulukan, Burge | |
| dc.contributor.coauthor | Cetin Tas, Yagmur | |
| dc.contributor.coauthor | Morova, Berna | |
| dc.contributor.coauthor | Aydin, Musa | |
| dc.contributor.coauthor | Uysalli, Yigit | |
| dc.contributor.coauthor | Demirtas, Elif | |
| dc.contributor.coauthor | Erkan, Mert | |
| dc.contributor.coauthor | Tellioglu, Gurkan | |
| dc.contributor.coauthor | Atak, Dila | |
| dc.contributor.coauthor | Gursoy Ozdemir, Yasemin | |
| dc.contributor.coauthor | Karahuseyinoglu, Sercin | |
| dc.contributor.coauthor | Yurdaydin, Cihan | |
| dc.contributor.coauthor | Akyildiz, Murat | |
| dc.contributor.coauthor | Sheth, Abhishek | |
| dc.contributor.coauthor | Aithal, Guruprasad Padur | |
| dc.contributor.coauthor | Kirimlioglu, Hale | |
| dc.contributor.coauthor | Dayangac, Murat | |
| dc.contributor.coauthor | Ferhanoglu, Onur | |
| dc.contributor.coauthor | Kiraz, Alper | |
| dc.contributor.coauthor | Zeybel, Muejdat | |
| dc.contributor.department | School of Medicine | |
| dc.contributor.department | Department of Physics | |
| dc.contributor.department | Graduate School of Health Sciences | |
| dc.contributor.kuauthor | Researcher, Yiğit Alpdoğan, Buket | |
| dc.contributor.kuauthor | PhD Student, Özgönül, Ekin | |
| dc.contributor.kuauthor | PhD Student, Yaman, Ömer | |
| dc.contributor.kuauthor | PhD Student, Sipahioğlu, Tarık | |
| dc.contributor.kuauthor | PhD Student, Ulukan, Bürge | |
| dc.contributor.kuauthor | Researcher, Taş, Yağmur Çetin | |
| dc.contributor.kuauthor | Researcher, Morova, Berna | |
| dc.contributor.kuauthor | PhD Student, Uysallı, Yiğit | |
| dc.contributor.kuauthor | Faculty Member, Tellioğlu, Gürkan | |
| dc.contributor.kuauthor | Researcher, Atak, Dila | |
| dc.contributor.kuauthor | Faculty Member, Özdemir, Yasemin Gürsoy | |
| dc.contributor.kuauthor | Faculty Member, Karahüseyinoğlu, Serçin | |
| dc.contributor.kuauthor | Doctor, Yurdaydın, Cihan | |
| dc.contributor.kuauthor | Faculty Member, Akyıldız, Murat | |
| dc.contributor.kuauthor | Faculty Member, Kiraz, Alper | |
| dc.contributor.kuauthor | Faculty Member, Zeybel, Müjdat | |
| dc.contributor.schoolcollegeinstitute | School of Medicine | |
| dc.contributor.schoolcollegeinstitute | College of Sciences | |
| dc.date.accessioned | 2025-09-10T04:58:43Z | |
| dc.date.available | 2025-09-09 | |
| dc.date.issued | 2025 | |
| dc.description.abstract | Although liver biopsy is a well-established technique to assess fibrosis it has several limitations, including invasive nature, semi-quantitative assessment methods, significant sampling and observer variability, making precise assessment of hepatic fibrosis challenging. Accurate and reliable modalities are crucial for clinical trials to characterize hepatic fibrosis monitorization effectively. We aimed to perform 3-dimensional imaging of optically transparent liver samples by light-sheet microscopy (LSM) to quantify extracellular matrix (ECM) proteins. Fifty-seven MASLD, thirty-eight chronic hepatitis patients and twelve healthy individuals were included. Liver tissues were cleared with a CLARITY method. 3D imaging of ECM was performed via the newly developed LSM. Collagen Proportionate Volume (CPV) and Elastin Proportionate Volume (EPV) values were calculated by analysis of over 200 sections per sample through morphometry. We have optimized a method which achieves transparency of liver tissues in advanced fibrotic stages of MASLD and optimized non-destructive slide-free fibrosis pathology of whole fresh and FFPE liver biopsy samples. Cut-off values for CPV and EPV were established for fibrotic stages. CPV and EPV analysis showed a considerable optical section heterogeneity resulting in a fibrosis stage of variance within the sample. Volumetric image analysis for fibrosis staging revealed that only 44% and 47% of optical sections would be staged the same for F3 and F4, respectively. For the first time, our findings demonstrate a novel method of analyzing 3D digital pathology of liver fibrosis using in-house LSM. Volumetric imaging of whole liver biopsy samples showed that fibrosis heterogeneity occurs even in different sections. | |
| dc.description.fulltext | Yes | |
| dc.description.harvestedfrom | Manual | |
| dc.description.indexedby | WOS | |
| dc.description.indexedby | PubMed | |
| dc.description.openaccess | Gold OA | |
| dc.description.publisherscope | International | |
| dc.description.readpublish | N/A | |
| dc.description.sponsoredbyTubitakEu | TÜBİTAK | |
| dc.description.sponsorship | Scientific and Technological Research Council of Turkey (TÜBİTAK) 1001 grant [117S440]; Turkish Academy of Sciences (TUBA); Republic of Turkey Ministry of Development Research Infrastructure Support Program | |
| dc.description.version | Published Version | |
| dc.description.volume | 15 | |
| dc.identifier.doi | 10.1038/s41598-025-98680-y | |
| dc.identifier.embargo | No | |
| dc.identifier.filenameinventoryno | IR06455 | |
| dc.identifier.issn | 2045-2322 | |
| dc.identifier.issue | 1 | |
| dc.identifier.quartile | N/A | |
| dc.identifier.uri | https://doi.org/10.1038/s41598-025-98680-y | |
| dc.identifier.uri | https://hdl.handle.net/20.500.14288/30356 | |
| dc.identifier.wos | 001523001700037 | |
| dc.keywords | Liver fibrosis | |
| dc.keywords | Slide-free pathology | |
| dc.keywords | CLARITY | |
| dc.keywords | 3D imaging | |
| dc.keywords | MASLD | |
| dc.language.iso | eng | |
| dc.publisher | Nature Portfolio | |
| dc.relation.affiliation | Koç University | |
| dc.relation.collection | Koç University Institutional Repository | |
| dc.relation.ispartof | Scientific reports | |
| dc.relation.openaccess | Yes | |
| dc.rights | CC BY-NC-ND (Attribution-NonCommercial-NoDerivs) | |
| dc.rights.uri | https://creativecommons.org/licenses/by-nc-nd/4.0/ | |
| dc.subject | Multidisciplinary Sciences | |
| dc.title | Investigating hepatic fibrosis heterogeneity by three-dimensional imaging in metabolic dysfunction-associated steatotic liver disease | |
| dc.type | Journal Article | |
| dspace.entity.type | Publication | |
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| relation.isOrgUnitOfPublication | 2f870f28-12c9-4b28-9465-b91a69c1d48c | |
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