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Öğe Analysis of E6/E7 mRNA gene expression by means of NucliSENS EasyQ (NASBA) technique in patients suffering from cervical dysplasia with HPV positive(7847050 Canada Inc, 2017) Ciplak, B.; Yilmaz, E.; Otlu, B.; Coskun, E. I.; Sahin, N.; Tuncay, G.Objective: In this study, the authors aimed at examining E6/E7 mRNA gene expression by means of NucliSENS EasyQ (NASBA) in patients in which HPV infection was detected and diagnosed with cervical dysplasia. Materials and Methods: This study included 77 patients diagnosed with cervical dysplasia. The patients were grouped based on cervico-vaginal smear anomalies. Digene HC2 DNA Collection Device transport medium was used for taking and keeping cervical samples, QIA symphony SP device, and QIAsymphony DSP AXpH DNA kit were used for HPV DNA extraction from cervical samples kept in transport medium, HPV Q24 complete kit, RotorGene and PyroMark Q24 for detection of HPV-DNA and determination of HPV types and NucliSENS Easy Q Genetic Analyzer technique for determination of E6/E7 gene expression in HPV positive samples. SPSS (Statistical Package for Social Sciences) Version 22.0 was employed in statistical evaluation of the research date. Results: The most common HPV was considered as type 16 in this study. When pathology specimens of patients in whom dysplasia was detected in their cervical biopsies were examined in terms of HPV E6/E7 mRNA expression, a statistically significant difference was found between the normal and pathology groups (p < 0.05). Conclusion: Today, the presence of HPV infection in etiology of cervical smear pathologies and dysplasia is undisputedly accepted. The main determinant factor of HPV virulence is the frequency of E6 and E7 gene expressions existing in the DNA structure and responsible for virulence. NucliSENS_Ea_syQ (NASBA) is a technique employed to analyze mRNA gene expression in an accurate, reliable, and rapid way. Parallel to the conclusions of studies in the literature, frequency of E6/E7 gene expression increases in proportion to the increasing dysplasia degree of cervical pathologies in the present study as well.Öğe The effect of vaginal microbiota on the outcome of assisted reproductive technologies(Oxford Univ Press, 2020) Karaer, A.; Dogan, B.; Tuncay, G.; Gunal, S.; Tecellioglus, A. N.[Abstract Not Available]Öğe High-resolution 1H-NMR spectroscopy indicates variations in metabolomics profile of follicular fluid from women with advanced maternal age(Springer/Plenum Publishers, 2020) Dogan, B.; Karaer, A.; Tuncay, G.; Tecellioglu, N.; Mumcu, A.Aim To reveal whether there are differences in follicular fluid metabolomics profile of women with advanced maternal age (AMA). Method The group with advanced maternal age includes 23 patients above the age of 40, and the control group includes 31 patients aged between 25 and 35 years and AMH values above 1.1 ng/mL with no low ovarian response history. A single follicular fluid sample from a MII oocyte obtained during the oocyte pick-up procedure was analyzed with high-resolution H-1-NMR (nuclear magnetic resonance) spectroscopy. The results were evaluated using advanced bioinformatics analysis methods. Results Statistical analysis of the NMR spectroscopy data from two groups showed that alpha-glucose and beta-glucose levels of follicular fluid were decreased in the patients with AMA, while in contrast, lactate and trimethylamine N-oxide (TMAO) levels were increased in these patients compared with the controls. In addition to these, there was an increase in alanine levels and a decrease in acetoacetate levels in patients with AMA. However, these changes were not statistically significant. Conclusion Obtained results suggest that the follicular cell metabolism of patients with AMA is different from controls. These environmental changes could be associated with the low success rates of IVF treatment seen in these patients.Öğe Metabolomics analysis of seminal plasma in patients with idiopathic Oligoasthenoteratozoospermia using high-resolution NMR spectroscopy(Wiley, 2020) Mumcu, A.; Karaer, A.; Dogan, B.; Tuncay, G.Background Male infertility is a global health issue caused by a combination of different factors. Specialists generally rely on semen analysis to diagnose male infertility. However, it is known that diagnostic semen analysis fails to identify about 50% of male infertility disorders. Recently, metabolomics has been proven to be a powerful technique for the diagnosis of different diseases. Objective To determine whether metabolites could be used as potential biomarkers for the diagnosis of male factor infertility through comparing seminal plasma samples from infertile men with oligoasthenoteratozospermia (OAT) and samples from normozoospermic controls. Materials and methods This study utilized high-resolution H-1 NMR spectroscopy to reveal whether the metabolomic changes of seminal plasma obtained from 31 patients with oligoasthenoteratozospermia (OAT) are different from the ones obtained from 28 normozoospermic controls. Results Multivariate statistical analysis of NMR data concluded that the metabolomic profile of samples from patients with OAT exhibits statistically significant differences when compared to the controls. The differences were based on the metabolites lactate, citrate, lysine, arginine, valine, glutamine, creatinine, alpha-ketoglutaric acid, spermine, putrescine, and tyrosine. Except the tyrosine, levels of the above metabolites were significantly decreased in patients with OAT compared to the controls. The levels of citrate, choline, spermine, putrescine, alpha-ketoglutaric acid, valine, and tyrosine were significantly different (p < 5 x 10(-4)) between two groups. On the other hand, levels of lactate, creatinine, lysine, arginine, and glutamine were also statistically significant (0.001 p < 0.05). However, considering the p-values, the physiological relevance of these metabolites may be lower when compared to the others. A PLS-DA model built on the NMR data achieved 89.29% sensitivity and 93.55% specificity results in a leave-one-out cross-validation process. Discussion and conclusion H-1 NMR spectroscopy-based metabolomic analysis could be used as a diagnostic tool for the diagnosis of oligoasthenoteratozospermia.Öğe Nuclear factor-kappa beta pathway and endometrial cancer: a pilot study(I R O G Canada, Inc, 2017) Yilmaz, E.; Coskun, E. I.; Gul, M.; Sahin, N.; Tuncay, G.; Simsek, Y.Objective: Examination of the role of nuclear factor-kappa beta (NF-kappa B) expression in the etiopathogenesis of endometrial cancer, by means of the immunohistochemical method. Materials and Methods: Patients who applied to participate in the study at the clinic were grouped into three categories: those diagnosed with benign endometrial pathology, those with endometrial hyperplasia, and those with endometrial cancer. NF-kappa B analysis was conducted in the endometrial tissues of the patients' paraffin blocks by means of the immunohistochemical method. For objective assessment purposes, the H score of each patient was calculated. SP SS 15.0 program was employed for statistical analysis. Results: The average H score of the first group, comprising benign endometrial pathologies, was 102.4 +/- 85.9, that of the hyperplasia group was 143.6 +/- 122.4, and that of the cancer group was 276.8 +/- 61.8. The average values of groups 1 and 2 were similar (p = 0.349); however, the third group's average H score was significantly higher (p < 0.001). Conclusion: NF-kappa B, which is a critical mediator in the inflammation process, might be related to the development of premalign and malign endometrial changes.Öğe The vaginal microbiota composition of women undergoing assisted reproduction: a prospective cohort study(Wiley, 2021) Karaer, A.; Dogan, B.; Gunal, S.; Tuncay, G.; Duz, S. Arda; Unver, T.; Tecellioglu, N.Objective To evaluate the impact of vaginal microbiota on pregnancy outcomes in women undergoing assisted reproduction. Design A prospective cohort study. Setting A university-based assisted reproductive technology (ART) centre. Population 223 women undergoing ART treatment. Methods Prior to embryo transfer, vaginal samples were collected from the posterior fornix. Vaginal microbiota identification was carried out using next-generation sequencing and categorised according to the V3-V4 hypervariable region in the 16S rRNA gene region. Main outcome measures ART clinical outcomes (implantation, clinical pregnancy rates and live birth rates). Results The live birth rate in women with community state type (CST)-I (39%) was higher than that in women with CST-III (21.5%) but the difference was not statistically significant (P = 0.052). The relative abundance of Lactobacillus was lower in women who failed to become pregnant (NP group) (67.71%) than in women who became pregnant (PR group) (79.72%). However, this difference was not statistically significant (P = 0.06). In the NP group, the relative abundance of Streptococcus (7.81%) and Gardnerella (9.40%) was higher than that in the PR group (relative abundance of Streptococcus and Gardnerella was 2.28% and 5.56%, respectively). The abundance of Streptococcus was found to be statistically significantly different between the two study groups (P = 0.014). Linear discriminant analysis (LDA) further validated that Streptococcus had the highest contribution (LDA score >4.0) to the difference between these two groups. Conclusions Streptococcus has the highest contribution to the distinction between the PR and NP groups. Tweetable abstract A relatively high abundance of Streptococcus in the vaginal microbiota may be associated with a lower ART success rate.
