Researcher:
Yiğit Alpdoğan, Buket

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Buket

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Yiğit Alpdoğan

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Yiğit Alpdoğan, Buket

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2018 - 201932020 - 20233

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Researcher Of Publications: search.filters.isAuthorOfPublication.1a63c726-b79a-446b-9737-a6867342e053

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Now showing 1 - 6 of 6
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    DNA methylation pattern of TM6SF2 influences NAFLD progression in genotype-dependent manner
    (Elsevier, 2019) Adalı, Gupse; Dayangaç, Murat; N/A; N/A; N/A; N/A; N/A; N/A; Ulukan, Bürge; Yiğit Alpdoğan, Buket; Yılmaz, Onur; Cömert, Melis Cansu; Erkan, Murat Mert; Zeybel, Müjdat; PhD Student; Researcher; Undergraduate Student; Undergraduate Student; Faculty Member; Faculty Member; Graduate School of Health Sciences; N/A; School of Medicine; School of Medicine; School of Medicine; School of Medicine; N/A; N/A; N/A; N/A; 214689; 214694
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    Three-dimensional imaging of cleared human liver tissues reveals extensive fibrosis heterogeneity in non-alcoholic fatty liver disease
    (Elsevier, 2022) Ulukan, Burge; Tas, Yagmur Cetin; Morova, Berna; Aydin, Musa; Uysalli, Erkan, Mert; Karahuseyinoglu, Sercin; Yurdaydin, Cihan; Akyildiz, Murat; Sheth, Abhishek; Kirimlioglu, Hale; Dayangac, Murat; Ferhanoglu, Onur; Kiraz, Alper; Zeybel, Mujdat; N/A; N/A; N/A; N/A; N/A; N/A; Department of Physics; N/A; N/A; N/A; N/A; Özdemir, Yasemin Gürsoy; Yiğit Alpdoğan, Buket; Özgönül, Ekin; Yaman, Ömer; Morova, Berna; Uysallı, Yiğit; Kiraz, Alper; Taş, Yağmur Çetin; Demirtaş, Elif; Karahüseyinoğlu, Serçin; Zeybel, Müjdat; Faculty Member; Researcher; PhD Student; PhD Student; Researcher; PhD Student; Faculty Member; Researcher; Master Student; Faculty Member; Faculty Member; Department of Physics; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); N/A; School of Medicine; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; N/A; Graduate School of Sciences and Engineering; College of Sciences; School of Medicine; Graduate School of Health Sciences; School of Medicine; School of Medicine; 170592; N/A; N/A; N/A; N/A; N/A; 22542; N/A; N/A; 110772; 214694
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    Plasma cell-free DNA methylation: a liquid biomarker of hepatic fibrosis
    (BMJ Publishing Group, 2018) Boyle, Marie; Hardy, Timothy; Bergmann, Christina; Distler, Joerg H. W.; Adali, Gupse; Dayangac, Murat; Mann, Derek A.; Mann, Jelena; Yiğit Alpdoğan, Buket; Özler, Oğuz; Erden, Nihan; Tutucu, Faik; Zeybel, Müjdat; Researcher; Undergraduate Student; Undergraduate Student; Undergraduate Student; Faculty Member; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); N/A; School of Medicine; School of Medicine; School of Medicine; School of Medicine; N/A; N/A; N/A; N/A; 214694
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    Hyperglycemia with or without insulin resistance triggers different structural changes in brain microcirculation and perivascular matrix
    (Springer/Plenum Publishers, 2023) Pekmez, Murat; N/A; Özkan, Esra; Taş, Yağmur Çetin; Şekerdağ, Emine; Yiğit Alpdoğan, Buket; Shomalizadeh, Narges; Özler, Ceyda; Kesibi, Judy; Kızılırmak, Ali Burak; Eser, Hale Yapıcı; Zeybel, Müjdat; Karahüseyinoğlu, Serçin; Özdemir, Yasemin Gürsoy; Researcher; Researcher; Researcher; Researcher; PhD Student; PhD Student; Master Student; Master Student; Master Student; Faculty Member; Faculty Member; Faculty Member; Faculty Member; N/A; School of Medicine; Graduate School of Health Sciences; N/A; Graduate School of Health Science; Graduate School of Health Science; Graduate School of Health Sciences; Graduate School of Health Sciences; Graduate School of Health Sciences; School of Medicine; School of Medicine; School of Medicine; School of Medicine; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); N/A; N/A; N/A; N/A; N/A; N/A; N/A; N/A; N/A; 134359; 214694; 110772; 170592
    Both type-1 and type-2 DM are related to an increased risk of cognitive impairment, neurovascular complications, and dementia. The primary triggers for complications are hyperglycemia and concomitant insulin resistance in type-2 DM. However, the diverse mechanisms in the pathogenesis of diabetes-related neurovascular complications and extracellular matrix (ECM) remodeling in type-1 and 2 have not been elucidated yet. Here, we investigated the high fat-high sucrose (HFHS) feeding model and streptozotocin-induced type-1 DM model to study the early effects of hyperglycemia with or without insulin resistance to demonstrate the brain microcirculatory changes, perivascular ECM alterations in histological sections and 3D-reconstructed cleared brain tissues. One of the main findings of this study was robust rarefaction in brain microvessels in both models. Interestingly, the HFHS model leads to widespread non-functional angiogenesis, but the type-1 DM model predominantly in the rostral brain. Rarefaction was accompanied by basement membrane thickening and perivascular collagen accumulation in type-1 DM; more severe blood-brain barrier leakage, and disruption of perivascular ECM organization, mainly of elastin and collagen fibers' structural integrity in the HFHS model. Our results point out that the downstream mechanisms of the long-term vascular complications of hyperglycemia models are structurally distinctive and may have implications for appropriate treatment options.
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    PublicationOpen Access
    Multiomics analysis reveals the impact of microbiota on host metabolism in hepatic steatosis
    (Wiley, 2022) Arif, Muhammad; Li, Xiangyu; Altay, Özlem; Shi, Mengnan; Shoaie, Saeed; Türkez, Hasan; Nielsen, Jens; Zhang, Cheng; Uhlen, Mathias; Boren, Jan; Mardinoğlu, Adil; Yang, Hong; Ural, Dilek; Akyıldız, Murat; Gönenli, Mehmet Gökhan; Kurtoğlu, Burçin Sağlam; Yiğit Alpdoğan, Buket; Ulukan, Bürge; Zeybel, Müjdat; Faculty Member; Faculty Member; Teaching Faculty; Faculty Member; Graduate School of Health Sciences; School of Medicine; 1057; 123080; 350445; N/A; N/A; N/A; N/A
    Metabolic dysfunction-associated fatty liver disease (MAFLD) is a complex disease involving alterations in multiple biological processes regulated by the interactions between obesity, genetic background, and environmental factors including the microbiome. To decipher hepatic steatosis (HS) pathogenesis by excluding critical confounding factors including genetic variants and diabetes, 56 heterogenous MAFLD patients are characterized by generating multiomics data including oral and gut metagenomics as well as plasma metabolomics and inflammatory proteomics data. The dysbiosis in the oral and gut microbiome is explored and the host-microbiome interactions based on global metabolic and inflammatory processes are revealed. These multiomics data are integrated using the biological network and HS's key features are identified using multiomics data. HS is finally predicted using these key features and findings are validated in a follow-up cohort, where 22 subjects with varying degree of HS are characterized.
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    PublicationOpen Access
    Fabrication and characterization of large numerical aperture, high-resolution optical fiber bundles based on high-contrast pairs of soft glasses for fluorescence imaging
    (Optical Society of America (OSA), 2019) Aydın, Musa; Doğan, Buket; Kasztelanic, Rafal; Pysz, Dariusz; Buczynski, Ryszard; Department of Physics; N/A; Department of Electrical and Electronics Engineering; Morova, Berna; Bavili, Nima; Yaman, Onur; Yiğit Alpdoğan, Buket; Zeybel, Müjdat; Kiraz, Alper; Researcher; Researcher; Doctor; Faculty Member; Faculty Member; Department of Physics; Department of Electrical and Electronics Engineering; College of Sciences; School of Medicine; College of Engineering; N/A; N/A; N/A; N/A; 214694; 22542
    Fabrication and characterization of flexible optical fiber bundles (FBs) with in-house synthesized high-index and low-index thermally matched glasses are presented. The FBs composed of around 15000 single-core fibers with pixel sizes between 1.1 and 10 mu m are fabricated using the stack-and-draw technique from sets of thermally matched zirconium-silicate ZR3, borosilicate SK222, sodium-silicate K209, and F2 glasses. With high refractive index contrast pair of glasses ZR3/SK222 and K209/F2, FBs with numerical apertures (NAs) of 0.53 and 0.59 are obtained, respectively. Among the studied glass materials, ZR3, SK222, and K209 are in-house synthesized, while F2 is commercially acquired. Seven different FBs with varying pixel sizes and bundle diameters are characterized. Brightfield imaging of a micro-ruler and a Convallaria majalis sample and fluorescence imaging of a dye-stained paper tissue and a cirrhotic mice liver tissue are demonstrated using these FBs. demonstrating their good potential for microendoscopic imaging. Brightfield and fluorescence imaging performance of the studied FBs are compared. For both sets of glass compositions, good imaging performance is observed for FBs, with core diameter and core-to-core distance values larger than 1.6 mu m and 2.3 mu m, respectively. FBs fabricated with K209/F2 glass pairs revealed better performance in fluorescence imaging due to their higher NA of 0.59.