Person: ILGIN, CAN
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ILGIN
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CAN
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Publication Metadata only Metagenomic analysis of black-stained plaques in permanent dentition(PERGAMON-ELSEVIER SCIENCE LTD, 2021) ILGIN, CAN; Celik, Zeynep Ceren; Cakiris, Aris; Yanikoglu, Funda; Abaci, Neslihan; Ekmekci, Sema Sirma; Ilgin, Can; Celik, Halil; Tagtekin, DilekObjectives: We aimed to determine the aetiologic agent responsible for black staining of permanent dentition using next-generation sequencing and determine the relationship between caries and black stains. Materials and methods: A total of 52 systemically healthy patients with black-stained and caries-free (n = 13), black-stained and carious (n = 13), black stain-free and caries-free (n = 13), and black stain-free and carious (n = 13) teeth were enrolled in the study. The International Caries Detection and Assessment System (ICDAS II) was used for caries classification. Between 08:00 and 10:00, supragingival plaque samples were collected after a minimum of 8-12 h of accumulation and DNA samples were isolated. The samples were processed using the ZymoBIOMICS (TM) Service. Bioinformatics analysis was performed using mothur at usegalaxy.org. Data were analysed statistically using the Pearson chi-square and Fisher tests. Results: The number of caries-free teeth (ICDAS 0, 1, and 2) was significantly higher in patients with black stains (p = 0.007).Capnocytophaga (4.8 %), Corynebacterium (3.9 %), and Neisseria (5.4 %) species were the most abundant among all black-stained plaques (carious and caries-free) (p < 0.05). Capnocytophaga (10.8 %), Cardiobacterium (3.6 %), and Rothia (1.72 %) species were detected in the black-stained plaques of caries-free patients (p < 0.05). Conclusion: This study is one of the first studies examining the microbial composition of dental plaques with black staining in carious and caries-free adult patients using next generation sequencing technology. In the presence of black staining, plaques have an ultimate complex microbial structure. A lower caries burden was noted in the presence of black staining.Publication Metadata only Capillary microarchitectural changes in Cushing's syndrome(Academic Press Inc., 2022) ILGIN, CAN; Apaydin T., Yalcinkaya Y., Ilgin C., Gogas Yavuz D.Purpose: Macrovascular alterations are prominent in Cushing's syndrome (CS). Microvascular abnormalities are yet to be established. This cross-sectional observational study aimed to evaluate microvascular changes in nailfold capillaries and their association with disease status and carotid intima-media thickness (CIMT) as a marker of atherosclerosis. Methods: A total of 70 patients with CS [46 (65.7%) ACTH-dependent pituitary adenoma and 24 (34.3%) adrenocortical adenomas] and 100 healthy controls were enrolled. The microvascular structure was evaluated using nailfold video-capillaroscopy (NVC). Results: The median number of capillaries was less [10 mm (IQR: 2, min-max:7–14) vs. 11 mm (IQR: 2, min-max:9–19) (p < 0.001)], the median limb diameter and capillary width were wider in the CS group than in the controls (p = 0.016 and p = 0.002, respectively). Microhemorrhages within limited areas were more frequent in the CS group than in the controls (p = 0.046). Observed capillary changes were similar among the patients with CS with remission or active disease. CIMT levels were higher in the CS group than in the controls and similar in subjects with active disease and remission. Univariate logistic regression analyses revealed that the number of capillaries and capillary widths were associated with body mass index (BMI), the presence of type 2 diabetes mellitus, HbA1c, and CIMT. Conclusion: Morphologic alterations present similarly in nailfold capillaries in subjects with CS regardless of disease status, resembling changes in chronic atherosclerotic diseases. Microvascular changes in nailfold capillaries measured using NVC can be used as a marker in the assessment of cardiovascular risk in patients with CS. © 2022 Elsevier Inc.Publication Metadata only Predictors for the risk and severity of post-thrombotic syndrome in vascular Behcet's disease(ELSEVIER, 2021) ILGIN, CAN; Aksoy, Aysun; Colak, Seda; Yagiz, Burcu; Coskun, Belkis Nihan; Omma, Ahmet; Yildiz, Yasin; Sari, Alper; Atas, Nuh; Ilgin, Can; Karadag, Omer; Erden, Abdulsamet; Dalkilic, Ediz; Bolca, Naile; Ergelen, Rabia; Onur, Mehmet Ruhi; Direskeneli, Haner; Alibaz-Oner, FatmaObjective: Deep vein thrombosis (DVT) of the lower extremities is the most common form of vascular involvement in Behcet disease (BD), frequently leading to post-thrombotic syndrome (PTS) as a disabling complication. We have described the clinical characteristics and predictors of PTS presence among patients with BD and lower extremity DVT. We also used venous Doppler ultrasound (US) examinations in our assessment. Methods: Patients with BD (n = 205; 166 men, 39 women; age 39 6 9.5 years) and a history of DVT were investigated. The Villalta scale was used to assess the presence and severity of PTS. Doppler US examinations were performed within 1 week of the clinical evaluation. The total number of vessels with reflux, thrombi, recanalization, and collateral vessels were calculated. Results: Of the 205 patients with BD, 62% had had PTS and 18% had had severe PTS. Patients with PTS had had greater reflux (P = .054) and thrombosis (P = .02) scores compared with patients without PTS. Treatment with anticoagulation (AC), immunosuppressive (IS) therapy, or AC combined with IS drugs did not affect the occurrence of PTS. However, patients treated with IS therapy, with or without AC drugs, had a decreased incidence of severe PTS compared with the AC-only group (P = .017). Patients treated with AC plus IS agents also had increased collateral scores compared with patients treated with only IS drugs. Interferon-a use seemed to provide better recanalization scores compared with azathioprine only (1.0 [range, 0-14] vs 2.5 [range, 0-10]; P = .010). Conclusions: Patients with BD and DVT have a high risk of developing severe PTS. IS treatment decreases the development of severe PTS. AC therapy might influence the course of PTS by increasing the collateral scores, and the use of interferon-a also increased recanalization scores. Routine assessment with Doppler US examinations could be helpful in the prediction of severe PTS. (J Vasc Surg Venous Lymphat Disord 2021;9:1451-9.)Publication Metadata only Urinary micro-RNA expressions and protein concentrations may differentiate bladder cancer patients from healthy controls(SPRINGER, 2020) ILGIN, CAN; Amuran, Gokce Gullu; Tinay, Ilker; Filinte, Deniz; Ilgin, Can; Eyuboglu, Irem Peker; Akkiprik, MustafaPurpose To determine expression differences of urine exosomal miR-19b1-5p, 21-5p, 136-3p, 139-5p, 210-3p and concentration differences of urinary BLCA-4, NMP22, APE1/Ref1, CRK, VIM between bladder cancer, follow-up patients, and control samples, to evaluate diagnostic importance of these differences and establish a diagnostic panel for bladder cancer. Methods Urine samples of 59 bladder cancer patients, 34 healthy controls, and 12 follow-up patients without recurrence were enrolled to this study. Real-time PCR and ELISA were performed to determine urine exosomal miR-19b1-5p, 21-5p, 136-3p, 139-5p, 210-3p expressions and urinary BLCA-4, NMP22, APE1/Ref1, CRK, VIM, creatinine concentrations. Logistic regression analyses were performed to determine the diagnostic panel, the sensitivity, and specificity of the panel assessed by the ROC curve analysis. p values < 0.05 were considered statistically significant. Results In bladder cancer risk groups, mir-139, -136, -19 and 210 expressions or positivity were found to be different and concentrations of urinary Ape1/Ref1, BLCA4, CRK, and VIM increased by twofold on average compared to healthy controls. Logistic regression and ROC analyses revealed that panel could differentiate bladder cancer patients from healthy controls with 80% sensitivity and 88% specificity (AUC = 0.899), low-risk patients from controls with 93% sensitivity and 95.5% specificity (AUC = 0.976). Despite the low number of samples, our findings suggest that urine exosomal miR-19b1-5p, 136-3p, 139-5p expression, and urinary APE1/Ref1, BLCA-4, CRK concentrations are promising candidates in terms of bladder cancer diagnosis. Conclusions Although our panel has great sensitivity for early detection of BC, it needs to be validated in larger populations.Publication Metadata only Accuracy and reliability of magnetic resonance imaging in the diagnosis of idiopathic intracranial hypertension(2022-10-01) ULUÇ, KAYIHAN; ÇİMŞİT, NURİ ÇAGATAY; ILGIN, CAN; DERİCİOĞLU, VOLKAN; KAHRAMAN KOYTAK, PINAR; Kuzan B. N. , ILGIN C., Kuzan T. Y. , DERİCİOĞLU V., KAHRAMAN KOYTAK P., ULUÇ K., ÇİMŞİT N. Ç.© 2022 Elsevier B.V.Purpose: To determine the diagnostic utility of brain magnetic resonance imaging (MRI) findings in patients with idiopathic intracranial hypertension (IIH) and to investigate the significance of evaluating radiological findings together with neurological and ophthalmological data in the diagnosis of IIH. Materials and Methods: All consecutive patients diagnosed with IIH in our tertiary neuro-ophthalmology center between January 1, 2018 and March 15, 2020, were included in the study. The clinical, radiological, and ophthalmological findings of IIH patients were compared with the control group with similar demographic characteristics. Results: A total of 98 patients, 49 cases and 49 controls, were included in the study. Lateral ventricular index had the highest area under the curve (AUC) value (0.945) for prediction of disease group followed by sella height category (AUC = 0.915) and optic nerve tortuosity (AUC = 0.855) According to the multivariate model we developed, caudate index (OR = 0.572, 95% CI 0.329–0.996), lateral ventricle index (OR = 3.969, 95% CI 1.851–8.509) and bilateral optic nerve tortuosity (OR = 22,784, 95% CI 2.432–213.450) were significant predictors for disease group. Conclusion: Tortuosity in the optic nerve, lateral ventricular index and caudate index can be used as MRI parameters supporting the diagnosis of IIH in clinically suspicious cases. A holistic approach to the clinical and radiological findings of the cases in the diagnosis of IIH can prevent overdiagnosis and enable early correct diagnosis.Publication Metadata only Validity and Reliability of the Turkish Translation of the Yale Pharyngeal Residue Severity Rating Scale(SPRINGER) ILGIN, CAN; Atar, Yavuz; Atar, Sevgi; Ilgin, Can; Anarat, Melis Ece Arkan; Uygan, Ugur; Uyar, YavuzThis study aimed to assess the validity and reliability of the Turkish translation of the Yale pharyngeal residue severity rating scale. The scale measures the severity of residue in the vallecula and pyriform sinus. The original scale was translated into Turkish by two bilingual English-Turkish translators, and the Turkish version was translated back into English by two qualified professional translators to assess accuracy. The evaluators were divided into two groups (training and no-training) and two subgroups according to their experience. Intra-rater, inter-rater, and intra-class correlation coefficient measurements were analyzed by calculating agreement rates, kappa, and p values. In the analysis of the reliability, intra-class correlation coefficient values in the overall ratings for both the vallecula and the pyriform sinus were 0.9996 (95% CI 0.9992-0.9998) and 0.9997 (95% CI 0.9995-0.9999), respectively (p < 0.01). High agreement (> 95%) and perfect Fleiss kappa values were obtained for the vallecula and pyriform sinus ratings in the inter-rater initial assessments (kappa = 0.959 and kappa = 0.967, respectively). Perfect kappa values were found in the intra-rater results for both the vallecula and pyriform sinus (alpha = 0.9959 and kappa = 0.9959, respectively). In the inter-rater secondary analysis, the vallecula and pyriform sinus kappa values were perfect (kappa = 0.959 and kappa = 0.967, respectively). In the intra-rater analysis, perfect kappa values were obtained for the vallecula and pyriform sinus in the no-training group and less-experience subgroup (kappa = 0.9918 and kappa = 1.0 for the vallecula, and kappa = 1.0 and kappa = 0.9902 for the pyriform sinus, respectively) In the inter-rater analysis, perfect kappa values were obtained for the vallecula and pyriform sinus in the no-training group and less-experience subgroup (kappa = 0.9507 and kappa = 0.9606 for the vallecula, and kappa = 0.9836 and kappa = 1.0 for the pyriform sinus, respectively). The Turkish translation of the Yale pharyngeal residue severity rating scale demonstrated high validity and reliability scores in determining pharyngeal residue location and value in the fiberoptic endoscopic evaluation of swallowing.Publication Metadata only The association of free testosterone levels with coronavirus disease 2019(2022) ILGIN, CAN; Apaydin, Tugce; Sahin, Bahadır; Dashdamirova, Saida; Dincer Yazan, Ceyda; Elbasan, Onur; Ilgin, Can; Bilgin, Hüseyin; Cam, Haydar Kamil; Bahramzada, Gunel; Kucuk, Aleyna; Haklar, Goncagul; Iliksu Gozu, HulyaPublication Metadata only The Factors Affecting the Awareness about Transplantation and Decision of Organ Donation in Istanbul, Turkey(LIPPINCOTT WILLIAMS & WILKINS, 2018) ILGIN, CAN; Cevik, Ali; Ilgin, Can; Erdogan, Eren; Ardali, Gulay; Cevik, Yusuf; Birtan, Deniz; Dulundu, EnderPublication Metadata only The complex microbiome of caries-active and caries-free supragingival plaques in permanent dentition(Wolters Kluwer Medknow Publications, 2021) ILGIN, CAN; Celik Z., Cakiris A., Abaci N., Yaniikoglu F., Ilgin C., Ekmekci S., Celik H., Tagtekin D.Background and Aim: Dental caries is one of the most common diseases seen in the oral cavity in all periods of deciduous, mixed, and permanent dentition. A comprehensive study of the oral microbiome is required to understand its polymicrobial etiology. The aim of this study was to reveal the plaque microbiome of caries-active and caries-free adults. Materials and Methods: A total of 52 samples were collected from 26 caries-active patients and 26 caries-free controls. Dental supragingival plaque samples were collected from each subject and the bacterial 16S rDNA, expanded V3-V4 region, was amplified using next generation sequencing. Results: The core microbiome was defined with 235 shared bacteria in genus level, and among all microbiome 14.8% of all bacteria showed significant difference (P < 0.05). The bacteria responsible of caries may be listed as Anaeroglobus, Atopobium, Bifidobacterium, Centipeda, Cryptobacterium, Desulfobulbus, Filifactor, Howardella, Lactobacillus, Leptotrichiaceae (unclassified), Megasphaera, Mycoplasma, Olsenella, Phocaeicola, Propionibacterium, Pseudoramibacter, Scardovia, Schwartzia, Treponema, and Veillonellaceae (unclassified). Conclusion: The present study provides comprehensive knowledge of the microbiological etiology of caries in permanent dentition. © 2021 Wolters Kluwer Medknow Publications. All rights reserved.Publication Metadata only Mentalexo approach for diagnosis of psychiatric disorders(CHURCHILL LIVINGSTONE, 2020) TOPUZOĞLU, AHMET; Topuzoglu, Ahmet; Ilgin, CanIntroduction: Psychiatric disorders cause a high burden of disease and disability for the society. Liquid biopsies provide potent opportunities for screening programs, diagnosis, prognostic stratification and treatment monitorization. Previously, the liquid biopsy studies were mainly focused on the several malignancies without proper screen methods, but this approach has also a strong potential for decreasing disease burden in CNS pathologies. The main restriction for the diagnosis of CNS diseases is the lack of the methods to receive biochemical/functional information form a tightly enveloped compartment. The hypothesis/theory: In this proposal, we aim to develop a fast and cheap diagnostic platform based on the detection of exosomes originating from the central nervous system (CNS) cells. We intended to develop a sensor device with minimum maintenance costs, which is highly specific and sensitive for psychiatric diseases. Evaluation of the hypothesis/idea: In order to give background information for our proposal; we began with reviewing the concept of liquid biopsies and adaptation of this concept for psychiatric disorders. Then we discussed the conventional and novel methods for the detection of extracellular vesicles (EV). Furthermore, we discussed the detection of exosomes originating from central nervous system and methods analyzing the content of the EVs. Additionally, we reviewed the imaging techniques for detection and visualization of EVs. Empirical data: We used in silico research tools (MetaCore (TM) version 6.37, Clarivate Analytics, and ExoCarta database) to detect appropriate disease specific exosomal markers. We proposed our design for the detection of EVs based on the immune-capture of EVs and detection of surface antigens via the antibody conjugated fluorophores. We also proposed a design to increase the channels for detection of exosomal antigens by using bioinformatics methods, including pathway networks, RDOC matrices and exosome databases which we called Mentalexo approach. We applied this approach on depression and addiction disorders in order to find appropriate exosomal markers. Consequences of the hypothesis and discussion: We believe that our proposal may contribute to the conception of new diagnostic devices focusing on the detection of exosomes in psychiatric conditions.