Fakülteler / Faculties
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Item Frequency of IL-1B Gene Polymorphisms in Patients with Gastroesophageal Cancer in the Hakkari Region(2023) Yaman, Derya; Akad Dincer, Selin; Karaka, Yusuf; Unsoy, Gozde; Terzi, Yunus Kasim; Sahin, Feride IffetObjective: Gastric cancer is a complex malignant tumor associated with chronic inflammation. In the present study, we aimed to investigate the frequency of interleukin 18 (IL-18) gene polymorphisms affecting gene expression in patients with gastroesophageal cancer (GC) diagnosed in the Hakkari region. Methods: Blood samples of 17 patients with GC (group 1) and 59 healthy controls (group 2) were enrolled in the study. The single-nucleotide polymorphisms (SNPs) rs1143627 c.-118C>T, rs16944 c.-598C>T, and rs1143634 c.315C>T polymorphisms in the IL-18 gene were studied among groups via polymerase chain reaction and restriction fragment length polymorphism. Results were analyzed by descriptive statistics and the x(2) test. The association between SNPs and GC risk was evaluated by odd ratios (ORs) and 95% confidence intervals. Results: The frequencies of the three genotypes in the SNP rs1143627, rs16944, and rs1143634 were similar between the groups, and C>T transition was not found to be significant [(p=0.69, OR: 1.16 95%, confidence interval (CI): 0.54-2.51; p= 0.16, OR: 0.58 95%, CI: 0.26-1.25; p=0.7, OR: 0.83 95%, CI: 0.32-2.11, respectively]. Conclusion: Our results did not reveal any significant association between IL-18 gene SNPs and gastroesophageal cancer in the Hakkari region.Item Evaluation of the Genetic Analysis Results in Infertile Patients with Non-Obstructive Azoospermia(2023) Sen, Erhan; Kizilkan, Yalcin; Duran, Mesut Berkan; Turunc, Tahsin; Sahin, Feride Iffet; Ozkardes, Hakan; 0000-0001-7308-9673; 0000-0002-7277-449X; AAC-7232-2020; AAH-1052-2020Objective: To evaluate the genetic analysis results of patients who referred to our clinic infertility and whom semen analysis revealed non -obstructive azoospermia (NOA).Materials and Methods: Among 994 patients who underwent a microscopic testicular sperm extraction (micro-TESE) operation for NOA, 497 patients who were tested for karyotype analysis and 450 patients who were tested for chromosome Y microdeletion were included in our study. The rates of Klinefelter syndrome (KS) and Y chromosome microdeletion, sperm retrieval rates (SRR) in these genetic anomalies and the factors affecting them were investigated. Additionally, the association between the age, duration of infertility, testicular size, serum follicle stimulant hormone (FSH) and testosterone levels of patients and sperm extraction rates of micro-TESE operations were also evaluated.Results: The overall SRR of NOA patients who underwent micro-TESE was 47.5%. Among 104 patients with KS, sperm was successfully found after micro-TESE in 22 (21.2%). Fourteen patients were diagnosed with the Y chromosome microdeletion and sperm was successfully found in 4 (28.6%) of them; while the duration of infertility did not affect the SRR after micro-TESE (p=0.712); age, testicular volume serum FSH and testosterone levels had a significant effect on the SRR (p<0.005).Conclusion: In this study, the SRR of patients who have chromosome Y microdeletion or KS, was found to be lower than other studies in the literature. This difference could be derived from the genetically tested population's structure, variance in the gene areas used for scanning and different demographic characteristics of different regions.Item Reclassification of Clinical Exome Data Leads To Significant Clinical Assessment Changes in Almost Half of the Patients(2023) Bayraktar, Umut Arda; Sahin, Feride Iffet; Polat, Mert; Terzi, Yunus KastmPurpose: With the global accumulation of genetic/clinical data, we are understanding the clinical significance of the reclassification of pathogenicity for gene variants. We hypothesized that this evolution in classification(s) may cause clinically-relevant discrepancies in the genetic risk assessment of subjects. In this study, we sought to reclassify the clinical exome sequence (CES) data of our patients to assess whether these changes would have clinical significance.Materials and Methods: The study included CES data of 23 cases diagnosed with cancer or familial cancer predisposition. The variants were first classified in 2020 and then reclassified a year after based on the ACMG database. Chart reviews were performed to record clinical history and interventions.Results: In the first classification of CES data, a total of 80 variants were identified as being not benign (26 likely pathogenic/pathogenic and 54 variants of undetermined significance (VUS)). The clinical significance of fifteen variants (19%) changed after reclassification in 10 patients (43%). The only upgraded variant was the c.9097 dup in exon 23 of BRCA2 gene (likely pathogenic to pathogenic). Fourteen variants were downgraded at reanalysis in 9 patients: from pathogenic to likely pathogenic (2 variants), pathogenic to VUS (2), likely pathogenic to VUS (4), and VUS to benign (6).Conclusion: Considering that the clinical significance of CES data changed due to reclassification in almost half of the studied patients, we believe genetic variant-related data should be assessed at regular intervals, regardless of follow-up status in the clinic.Item Sodium Chloride Priming Improves Salinity Response of Tomato at Seedling Stage(2014) Iseri, Ozlem Darcansoy; Sahin, Feride Iffet; Haberal, Mehmet; https://orcid.org/0000-0001-7308-9673; https://orcid.org/0000-0002-3462-7632; AAC-7232-2020; AAJ-8097-2021We aimed to investigate whether sodium chloride seed priming and irrigation at seedling stage enhance response of 5-leaf stage tomato plants (Lycopersium esculentum Mill.) to high salt stress. Three experimental groups were as; non-primed seeds, seeds primed with 0.05M sodium chloride (NaCl), and seeds primed and irrigated with 0.05M NaCl starting from sowing to salt stress application. Sodium chloride solutions (0.1M, 0.2M, 0.4M, and 0.6M) were added to cups under pots in every 2days for 10days to treatment groups. Control groups were irrigated with distilled water at the same time intervals. At least two experimental setups contained at least four plants, and two samplings of leaf and root tissues were performed for analysis of each plant to evaluate changes in pigment and proline contents, lipid peroxidation and electrolyte leakage levels, and ascorbate peroxidase and catalase activity. Priming reduced mean germination time, and increased final germination percentage together with energy of germination. Increased root and hypocotyl lengths as well as increases in fresh weights supported enhanced seedling vigor. Considering growth and stress parameters such as chlorophyll content, chlorophyll to carotenoid ratios, and lipid peroxidation and electrolyte leakage were less affected in primed plants. Moreover, improvement of the accumulation of osmoregulating defense molecules, such as proline and anthocyanin, and of the inductions of the antioxidative enzyme system points out to higher adaptive response of these plants against deleterious effects of salt.Item Effects of Silymarin and Silymarin-Doxorubicin Applications on Telomerase Activity of Human Hepatocellular Carcinoma Cell Line HepG2(2015) Yurtcu, Erkan; Iseri, Ozlem Darcansoy; Sahin, Feride Iffet; 0000-0001-7308-9673; 0000-0003-4930-8164; 26011349; AAC-7232-2020; AAA-2998-2021Purpose: Hepatocellular carcinoma (HCC) is resistant to conventional chemotherapeutics such as doxorubicin. Milk thistle extract, or its active constituent silymarin has been used by cancer patients as an alternative and complementary agent. Telomerase activation is one of the initial events of HCC. In this study, we applied doxorubicin and silymarin for 72 hrs in order to test individual and combined effect of the agents on telomerase activity. Methods: The effects of doxorubicin, silymarin, and their combination on the proliferation of HepG2 cell line were tested by MTT assay, and Checkerboard micro plate method was applied to define the nature of doxorubicin and silymarin interactions on the cells. Lipid peroxidations were assessed by thiobarbituric acid reactive substance (TBARS) level. Telomerase activity was determined according to the telomeric repeat amplification protocol (TRAP). Untreated cells were used as control group. Results: Doxorubicin-silymarin combination had indifferent antiproliferative effects on HepG2 cells. Telomerase activity of the cells incubated with IC50 of doxorubicin and silymarin decreased to 72% (p<0.05). IC50 combinations of doxorubicin and silymarin caused 70% (p<0.05) reduction. All treatments except for the 1/2IC(50) of silymarin caused significant increase in lipid peroxidation levels when compared to controls. TBARS levels did not significantly increase when doxorubicin and silymarin were applied in combination, which is in concordance with the indifferent drug interaction. Conclusion: IC50 of both doxorubicin and silymarin alone and in combination inhibited telomerase activity. Mechanism of inhibition may be elucidated by further molecular studies.Item Lack of Association of Matrix Metalloproteinase-9 Promoter Gene Polymorphism in Obstructive Sleep Apnea Syndrome(2015) Yalcinkaya, Mustafa; Erbek, Selim S.; Babakurban, Seda Turkoglu; Kupeli, Elif; Bozbas, Serife; Terzi, Yunus K.; Sahin, Feride Iffet; 0000-0001-5612-9696; 0000-0001-5067-4044; 0000-0003-4825-3499; 0000-0002-5826-1997; 0000-0001-7308-9673; 0000-0002-7230-202X; 26169999; B-4372-2018; AAI-8856-2021; B-7604-2019; AAB-5345-2021; AAC-7232-2020; AAI-8064-2021Purpose: Obstructive sleep apnea syndrome (OSAS) is a public health problem. There is an effort to establish the genetic contributions to the development of OSAS. One is matrix metalloproteinases, extracellular matrix degrading enzymes related to systemic inflammation. However, the impact of matrix metalloproteinase-9 (MMP-9) genotypes on the development of OSAS is unknown. Our aim was to determine whether MMP-9 single nucleotide polymorphism (SNP) (MMP-9 -1562C > T) is related to susceptibility to OSAS. Material and methods: A total of 106 patients with a history of sleep apnea and 88 controls without a history of sleep apnea were enrolled in this study. Genotypes were determined by restriction fragment length polymorphism analyses after polymerase chain reaction. Results: Genotypes and allele frequencies of the MMP-9 -1562C > T SNP was not statistically different between the patient and control groups (p > 0.05). There was a statistical association between apnea -hypopnea index (AHI) and body mass index (BMI), and also between AHI and neck circumference (p < 0.001). There was no association among the genotypes and AHI, neck circumference, or BMI (p > 0.05). Conclusions: We found no association between MMP-9 -1562C > T SNP and OSAS. Studies to investigate the role of other polymorphisms and expression of MMP-9 gene will provide more information. (C) 2015 European Association for Cranio-Maxillo-Facial Surgery. Published by Elsevier Ltd. All rights reserved.Item Presence of Matrix Metalloproteinase-2 and Tissue Inhibitor Matrix Metalloproteinase-2 Gene Polymorphisms and Immunohistochemical Expressions in Intracranial Meningiomas(2014) Coven, Ilker; Ozer, Ozge; Ozen, Ozlem; Altinors, Nur; Sahin, Feride Iffet; https://orcid.org/0000-0001-6731-2461; https://orcid.org/0000-0001-7308-9673; https://orcid.org/0000-0001-7308-9673; 25259564; ITT-4755-2023; AAC-7232-2020; AAC-7232-2020Object. Meningiomas are benign extraaxial tumors with a slow progression. Some of them, in spite of being benign in nature, may show an aggressive progression pattern. To investigate the behavioral characteristics of meningiomas, researchers have studied matrix metalloproteinases (MMPs), their tissue inhibitors (TIMPs), interstitial collagens, proteins, vascular endothelial growth factors (VEGF), and tumor necrosis factors. Methods. In this study, the authors investigated MMP2 and TIMP2 gene polymorphisms in formalin-fixed paraffin-embedded tissue samples obtained from meningioma patients who had previously undergone surgery at the authors' institution. In addition, brain invasion, Ki-67 index, and MMP-2 and TIMP-2 expressions were investigated using immunohistochemical methods. MMP2 (735C>T, 1575G>A, 1306C>T) and TIMP2 (418G>C, 303C>T) gene polymorphisms were investigated from paraffin-embedded tissue sections using the polymerase chain reaction restriction fragment length polymorphism method. Results. There were statistically significant differences between genotype (p = 0.001) and allele frequencies (p = 0.001 and OR 7.4 [95% CI 1.5-36.2]) in patient and control groups for MMP2 1306C>T polymorphism. The authors did not find a statistically significant difference for other polymorphisms. GA genotype was found to be more frequent when brain invasion was suspected for MMP2 1575G>A polymorphism (p = 0.006), There was not a statistically significant difference for other MMP2 or TIMP2 gene polymorphisms. Conclusions. The authors' results support the importance of MMPs and their tissue inhibitors in meningioma pathogenesis. In future studies, these gene polymorphisms, especially MMP2 1306C>T and 1575G>A, should be investigated for meningioma or brain invasion susceptibility in larger study groups.Item West Syndrome Associated with A Novel Chromosomal Anomaly; Partial Trisomy 8P Together with Partial Monosomy 9P, Resulting from A Familial Unbalanced Reciprocal Translocation(2015) Erol, Ilknur; Saygi, Semra; Demir, Senay; Alehan, Fusun; Sahin, Feride Iffet; 0000-0002-8522-5078; 0000-0001-7308-9673; 0000-0002-4209-9075; 0000-0002-3530-0463; 25878738; AAB-1203-2021; AAC-7232-2020; AAK-9310-2021; AAK-4825-2021West syndrome is classified according to the underlying etiology into an acquired West syndrome, a congenital/ developmental West syndrome, and West syndrome of unknown etiology. Causes of a congenital/ developmental West syndrome are extensive and include chromosomal anomalies. We report on a patient carrying a derivative chromosome originating from the reciprocal unbalanced translocation t (8;9) (p11.2;p22) and presenting with macrocephaly, West syndrome, severe mental motor retardation and hypotonia. As far as we know, this is a new chromosomal anomaly associated with West syndrome.Item FCN2 c.772G > T Polymorphism Is Associated With Chronic Adenoiditis And/Or Tonsillitis, But Not-4 A > G and-602 G > A(2016) Erkan, Alper N.; Oz, Isilay; Terzi, Yunus K.; Aydin, Erdinc; Ozkale, Murat; Babakurban, Seda Turkoglu; Koycu, Alper; Sahin, Feride Iffet; 0000-0003-0625-1057; 0000-0001-5612-9696; 0000-0001-7138-1400; 0000-0003-1290-3509; 0000-0002-7380-4566; 0000-0001-5067-4044; 0000-0001-7308-9673; 0000-0001-6864-7378; 27368434; A-7806-2016; B-4372-2018; H-1063-2019; AAF-3650-2021; AAJ-1452-2021; AAI-8856-2021; AAC-7232-2020; AAJ-2379-2021Objective: Ficolins are complement activating peptides that play a role in the initial host defense against infectious pathogens. In the present study, we investigated the relationship between single nucleotide polymorphisms (SNPs) in the ficolin 2 gene (FCN2) and chronic adenotonsillitis in pediatric cases. Study Design: Case-control study. Methods: A total of 101 pediatric patients diagnosed with chronic adenotonsillitis and 100 healthy children were enrolled in the study. Genotypes of FCN2 promoter SNPs -602 G>A and -4 A>G, and the exonic SNP c.772G>T were determined by light SNP assay after realtime PCR analysis using genomic DNA samples obtained from peripheral blood samples of all participants. Results: Of the 101 chronic tonsillitis patients, 38 were girls and 63 were boys; the mean age was 5.2 +/- 2.3 years. The c.772G>T SNP frequency was significantly higher in chronic adenotonsillitis cases compared to the control group (p = 0.00); however, no significant difference was determined at positions -602 G>A or -4 A>G (p > 0.05). Conclusions: The FCN2 c.772G>T genotype appears to be associated with predisposition to chronic adenotonsillitis in the pediatric age group. This nucleotide change is likely to influence the level of gene expression and contribute to the development of disease. (C) 2016 Elsevier Ireland Ltd. All rights reserved.Item Grafting Tomato Onto Tobacco Rootstocks Is A Practical and Feasible Application for Higher Growth and Leafing in Different Tobacco-Tomato Unions(2016) Haberal, Mehmet; Korpe, Didem Aksoy; Iseri, Ozlem Darcansoy; Sahin, Feride Iffet; 0000-0002-3462-7632; 0000-0001-7308-9673; AAJ-8097-2021; AAC-7232-2020A previously developed grafting strategy was applied to graft a commercial cultivated variety of tomato (Solanum lycopersicum L. H-2274) onto Nicotiana rustica L. (cv. Hasankeyf) and Nicotiana tabacum L. (cv. Samsun) rootstocks. Higher growth and leafing, and earlier flower onset were found in grafted than in non-grafted and self-grafted plants. Significant 22.7 and 34.3% increases in fruit yield were obtained with Samsun and Hasankeyf rootstocks, respectively. Leaves of tobacco-grafted plants had significantly elevated levels of nicotine, and highest leaf nicotine levels were measured at 90days after transplantation (DAT). Leaves from upper sampling levels of plants had significantly less nicotine independent of the sampling DAT. Fruits of all tobacco-grafted plants had significantly higher amounts of nicotine than non-grafted scions. Nicotine levels were higher in fruits sampled from lower parts of the plants for different harvest DAT and rootstocks. Increases in leaf nicotine concentration of tobacco-grafted plants were higher when compared with that of fruit. Grafting tomato onto tobacco rootstocks is a practical and feasible application for different tobacco-tomato unions.
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