Sivrikoz, E. | Timirci-Kahraman, Ö. | Ergen, A. | Zeybek, Ü. | Aksoy, M. | Yanar, F. | Kurto?lu, M.

Article | 2015 | In Vivo29 ( 2 ) , pp.229 - 236

Aim: The purpose of this study was to investigate the gene expression levels of elastin and fibulin-5 according to differences between carotid plaque regions and to correlate it with clinical features of plaque destabilization. Materials and Methods: The study included 44 endarterectomy specimens available from operated symptomatic carotid artery stenoses. The specimens were separated according to anatomic location: internal carotid artery (ICA), external carotid artery (ECA) and common carotid artery (CCA), and then stored in liquid nitrogen. The amounts of cDNA for elastin and fibulin-5 were determined by Quantitative real-time PC . . .R (Q-RT-PCR). Target gene copy numbers were normalized using hypoxanthine-guanine phosphoribosyltransferase (HPRT1) gene. The delta-delta CT method was applied for relative quantification. Results: Q-RT-PCR data showed that relative fibulin-5 gene expression was increased in ICA plaque regions when compared to CCA regions but not reaching significance (p=0.061). At the same time, no differences were observed in elastin mRNA level between different anatomic plaque regions (p>0.05). Moreover, elastin and fibulin-5 mRNA expression and clinical parameters were compared in ICA plaques versus CCA and ECA regions, respectively. Up-regulation of elastin and fibulin-5 mRNA levels in ICA were strongly correlated with family history of cardiovascular disease when compared to CCA ( Daha fazlası Daha az

Atasoy, H. | Güleç-Yilmaz, S. | Ergen, A. | Görmüş, U. | Küçükhüseyin, Ö. | Dalan, B. | İşbir, Turgay

Article | 2015 | In Vivo29 ( 1 ) , pp.51 - 54

Background/Aim: Reactive oxygen species (ROS) are involved in the development of certain neuropsychiatric disorders. Paraoxonase 1 (PON1) activity has been suggested to be adversely related to oxidative stress in plasma. The purpose of the present study was to demonstrate the relationship between serum PON1 activity and PON1 192 polymorphism in panic disorder (PD). Materials and Methods: Fourty-two patients with PD and 46 healthy controls were included in this study. PON1 192 genotypes were determined by polymerase chain reaction- restriction fragment length polymorphism (PCR-RFLP) analysis. PON1 activity was measured by spectrophot . . .ometric assay of p-nitrophenol production following the addition of paraoxon. Results: PON1 192 AA genotype and A allele in PD were significantly higher than in the control group, whereas the B allele was found to be significantly higher in the control group. Patients with panic disorder have lower PON1 activity than the control group. Conclusion: The PON1 192 AA genotype may increase the risk of PD depending on lipid peroxidation Daha fazlası Daha az

Kunt, A.T. | Isbir, S. | Gormus, U. | Kahraman, O.T. | Arsan, S. | Yilmaz, S.G. | İşbir, Turgay

Article | 2015 | In Vivo29 ( 4 ) , pp.461 - 465

Background: Genetic predisposition is a suggested risk factor in the etiology of varicose veins. The matrix metalloproteinase (MMP) family degrades extracellular matrix (ECM) and may lead to disturbances in vein wall structure. The activity of MMPs in the ECM are controlled by specific tissue inhibitors of MMPs (TIMP). The present study aimed to investigate the relationship between MMP9 and TIMP2 gene polymorphisms and varicose vein risk. Materials and Methods: Genotyping of the polymorphisms of MMP9 (1562 C/T) and TIMP2 (418G/C) was performed using polymerase chain reaction and restriction-fragment length polymorphism assays in a g . . .roup of patients with varicose veins (n=63) and healthy controls (n=70). Results: The frequencies of MMP9 alleles and genotypes did not differ significantly between patient and control groups. However, TIMP2-418 C allele was associated with increased risk for varicose vein formation (p=0.007). It was also shown that the frequency of the GG genotype was significantly higher in the control group than in the patient group (odds ratio=0.333, 95% confidence interval=0.14-0.78, p=0.012). Conclusion: TIMP2-418 C allele is associated with susceptibility for varicose vein formation and individuals with GG genotype may have a lower risk for varicose vein formation Daha fazlası Daha az

Bektaş-Kayhan, K. | Ünür, M. | Yaylim-Eraltan, I. | Ergen, H.A. | Toptaş, B. | Hafiz, G. | İşbir, Turgay

Article | 2010 | In Vivo24 ( 5 ) , pp.755 - 760

Background: It has been hypothesised that vitamin D receptor (VDR) gene polymorphisms may influence both the risk of cancer occurrence and prognosis. Materials and Methods: The distribution of VDR Taq I polymorphism in 64 patients with OSCC was determined by polymerase chain reaction based restriction fragment length polymorphism (RFLP) and compared with that of 87 healthy controls. Results: There was a significant difference in the distribution of VDR Taq I genotypes between OSCC patients and healthy controls. Patients with the VDR Tt genotype were found to be at significantly higher risk for OSCC than those with other genotypes (p . . .=0.036). In particular, female OSCC patients were at higher risk ( Daha fazlası Daha az

Attar, Rukset | Atasoy, H. | Inal-Gültekin, G. | Timirci-Kahraman, Ö. | Güleç-Yilmaz, S. | Dalan, A.B. | İşbir, Turgay

Article | 2015 | In Vivo29 ( 2 ) , pp.243 - 246

Aim: This study aimed to analyze the relation between uterine leiomyoma (ULM) patients and p.Q192R polymorphism. Materials and Methods: ULM patients (n=76) and healthy women (n=103) were recruited from the Yeditepe University, Department of Gynecology and Obstetrics. The genotype and allele distribution of p.Q192R was analyzed by polymerase chain reaction and restriction fragment length polymorphism methods. Genotype and allele frequencies between study groups were calculated by the chisquare (?2) and Fischer's exact test. Results: The frequency of the B allele was lower in patients (p<0.001) and the AB genotype showed a decrease . . .d risk for ULM development (p<0.001). The variation was unrelated to ULM size and number. There was no significant difference between p.Q192R genotype frequencies and fibroid size and number. Conclusion: The heterogeneous AB genotype of PON1 p.Q192R variation could be recognized as a low-risk parameter for the development of ULM in Turkish women. © 2015, International Institute of Anticancer Research. All rights reserved Daha fazlası Daha az

Atalan, N. | Karagedik, H. | Acar, L. | Isbir, S. | Yilmaz, S.G. | Ergen, A. | İşbir, Turgay

Article | 2016 | In Vivo30 ( 5 ) , pp.639 - 643

Aim: To analyze the effect of TLR-9 (-1486 T>C) and TLR-9 (C>T) gene polymorphisms both at TLR-9 levels and together with their sepsis parameters. In this regard, the polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) technique was used in order to detect TLR-9 gene polymorphisms, whereas the ELISA technique was used to analyze TLR-9 serum levels in 80 sepsis patients and 100 healthy individuals. Materials and Methods: The study group consisted of 80 patients with a diagnosis of sepsis and 100 healthy individuals. TLR-9 C>T polymorphism was identified by PCR-RFLP. Results: There was no substantial differen . . .ce observed between sepsis and control groups in terms of TLR-9 (-1486 T>C) and TLR-9 (C>T) genotype and allele distribution. When serum TLR-9 levels were compared to TLR-9 (-1486 T>C) and TLR-9 (C>T) genotype and allele distribution, there was a statistically substantial decrease in TLR-9 serum levels of both TLR-9 (-1486 T>C) TT and TLR-9 (C>T) TT individuals in the sepsis group (p=0.011 and p=0.036, respectively). Conclusion: There is no relation between sepsis and both TLR-9 (C>T) and TLR-9(-1486 T>C) polymorphisms; however, there is a relation between sepsis and decreased serum TLR-9 levels of both TLR-9 (-1486 T>C) TT and TLR-9 (C>T) TT polymorphisms due to sepsisassociated immunosuppression Daha fazlası Daha az

OZTüRK, T. | Toptaş-Hekimo?lu, B. | Eronat, A.P. | Saygili, N. | Da?lar-Aday, A. | BAŞSüLLü, N. | İşbir, Turgay

Article | 2015 | In Vivo29 ( 5 ) , pp.577 - 584

Background/Aim: The murine sarcoma viral (VRaf) oncogene homolog B (BRAF) V600E mutation, which increases protein kinase activity in BRAF- mitogen-Activated protein kinase kinase (MEK) - extracellular signal-regulated kinases (ERK) (mitogen-Activated protein kinase (MAPK)) signaling, is found in 5-40% of all colorectal carcinoma cases. Proteins with this mutation are reported to be 130-fold more active, which results in induced proliferation, differentiation, cellular survival, and angiogenesis. The aim of the present study was to investigate tumor tissues, together with the surrounding non-Tumoral tissues, for BRAF mutation presenc . . .e, which may be an indicator for possible recurrence or prognosis as in the 'field carcinogenesis' model. Materials and Methods: The BRAF V600E genotype of 152 colorectal adenocarcinoma paraffin-embedded specimens were determined by mutant-Allele-specific amplification-polymerase chain reaction. Results: According to our results, the presence of BRAF mutation increases risk of lymph node invasion by 1.55-fold [X2=3.83, p=0.05, odds ratio (OR)=1.55, 95% confidence interval (CI)=1.00-2.42], histologically medium or high-grade tumor by 1.60-fold (X2=4.34, p=0.030, OR=1.60, 95% CI=1.03-2.48), vascular invasion by 1.55-fold (X2=3.55, p=0.05, OR=1.55, 95% CI=0.99-2.42), perineural invasion by 1.50-fold (X2=3.16, p=0.07, OR=1.5, 95% CI=0.96-2.33) and the combination of these poor prognostic features by 1.54-fold (X2=2.47, p=0.11, OR=1.54, 95% CI=0.93-2.53). We also found that females are more prone to having the mutation and that being female increases the risk of having this mutation by 1.54-fold (X2=3.58, p=0.05, OR=1.54, 95% CI=0.97-2.44). Conclusion: BRAF V600E mutation in non-Tumoral surrounding tissue in patients with colorectal cancer may be used as a valuable marker to foresee clinical outcome or a possible recurrence. To our knowledge, this was the first study to take into consideration the non-Tumoral surrounding tissues in addition to the tumor tissue Daha fazlası Daha az

Toptas, B. | Görmüş, U. | Ergen, A. | Gürkan, H. | Keleşoglu, F. | Darendeliler, F. | İşbir, Turgay

Article | 2011 | In Vivo25 ( 3 ) , pp.425 - 430

Background: Obesity is a multifactorial, chronic disorder leading to adverse metabolic effects on plasma lipid levels. Apolipoprotein AI (Apo AI) is the major structural component of high-density lipoprotein (HDL) and is involved in the esterificatton of cholesterol as a cofactor of lecithin-cholesterol acyltransferase (LCAT) and thus plays a major role in cholesterol efflux from peripheral cells. The APOA1 gene is associated with changes in lipid metabolism. A common gene polymorphism described in the APOA1 promoter region consists of the exchange of guanine (G) for adenine (A) at a position -75 bp upstream of the transcription ori . . .gin. The relationship between lipid levels in obese children and the APOA1 MspI polymorphisms, was examined. Materials and Methods: Three separate groups were included, the patient group of obese children with hyperlipidemia; the obese control group (control group I) consisted of obese children without hyperlipidemia; and the healthy control group (control group II) contained healthy children with neither hyperlipidemia nor obesity. The related gene segments were amplified by polymerase chain reaction and determined different patterns were determined using denaturating gradient gel electrophoresis and positive results were confirmed automatic sequence analysis. All the results were analyzed by Proseq and BioEdit computer programmes. Results: The A allele was found to be more frequent in control group I compared to the patient group (p=0.035). Very low-density lipoprotein (VLDL), LDL and triglyceride (TG), levels were statistically higher in the patients carrying the GA genotype than in control group I, and body mass index (BMI), VLDL and TG levels were statistically higher than in control group II (p0.05). Additionally, according to the -75 GA genotypes, those in control group I with the GA genotype had elevated total cholesterol levels compared to those with the GG genotype ( Daha fazlası Daha az

Arikan, G.D. | İSbir, S. | Yilmaz, S.G. | İSbir, T.

Article | 2019 | In Vivo33 ( 3 ) , pp.787 - 792

Background/Aim: Cholesterol ester transfer protein (CETP) is responsible for the transformation of high density lipoprotein (HDL) to low density lipoprotein (LDL) and is a risk factor for atherosclerosis. Our study investigated the association of the rs5883 CETP gene polymorphism with HDL and LDL levels, in 45 coronary artery disease patients and 45 control patients. Materials and Methods: CETP gene polymorphism was detected using Real Time-Polymerase Chain Reaction (RT-PCR). Lipoprotein levels were measured using Quantimetrix system. Results: There were lack of associaition regarding CETP polymorphism in atherosclerosis and HDL and . . . LDL levels (p>0.05) BMI was higher among coronary artery disease patients (CADP) compared to the control group (28.97±6.38, 26.52±4.39 respectively, Daha fazlası Daha az

Attar, Rukset | Agachan, B. | Kuran, S.B. | Toptas, B. | Eraltan, I.Y. | Attar, E. | İşbir, Turgay

Article | 2010 | In Vivo24 ( 3 ) , pp.297 - 301

Backround/Aims: Endometriosis is regarded as a complex disese, in which genetic and environmental factors contribute to the disease phenotype. Whether vascular endothelial growth factor (VEGF) -460 C/T and +405 G/C polymorphisms are associated with susceptibility to endometriosis was investigated. Patients and Methods: Diagnosis of endometriosis was made on the basis of laparoscopic findings. Stage of endometriosis was determined according to the Revised American Fertility Society classification. Sixty out of the 112 women enrolled had no endometriosis, 11 had mild or early-stage endometriosis and 41 had severe endometriosis. Polyme . . .rase chain reaction (PCR), restriction fragment length polymorphism and agarose gel electrophoresis techniques were used to determine the -460 C/T and +405 G/C genotypes. Results: The VEGF +405 G/C genotype frequencies among the cases and controls were CC 55.8% and 35%; GC 30.8% and 50.0%; GG 13.5% and 15.0%, respectively. The allelic frequencies were C 71.15% (cases) and 60.0% (controls) and G 28.8% (cases) and 40% (controls). Patients with endometriosis had a higher incidence of the VEGF +405 CC genotype compared with the controls (p=0.027). Women with VEGF +405 CC genotype had 2.3-fold higher risk for endometriosis. VEGF +405 GC genotype and G allele in the control group was higher than the endometriosis group (p=0.039, p=0.027 respectively). The VEGF -460 C/T genotype frequencies among the cases were CC 21.2%, CT 26.9% and TT 51.9%; the C and T allelic frequencies were 34.6% and 65.3%, respectively. The VEGF -460 genotype frequencies among the controls were CC 31.70%, CT18.3% and TT 50.0%; the C and T allelic frequencies were 40.8% and 59.1%, respectively (p>0.05). There was linkage disequilibrium between VEGF -460 C/T and +405 G/C polymorphisms (D': 0.197, r2=0.013). We observed that the VEGF 460T/405C haplotype frequency was significantly higher in patients compared to controls (p=0.011). Conclusion: Our data suggest that the CC genotype of VEGF +405 and 460T/405C haplotypes of VEGF may be associated with the risk of endometriosis, but the G allele of VEGF +405 appears to be protective against endometriosis Daha fazlası Daha az

Öztürk, T. | Kahraman, Ö.T. | Toptaş, B. | Kisakesen, H.I. | Çakalir, C. | Verim, L. | İşbir, Turgay

Article | 2011 | In Vivo25 ( 4 ) , pp.663 - 668

Background: The aim of this study was to investigate a possible association of the CYP1A1 Ile462Val and GSTM1 null polymorphisms with the risk of developing bladder cancer in a Turkish population. Patients and Methods: The study constituted 176 patients with bladder cancer and 97 healthy individuals. Evaluation of CYP1A1 Ile462Val gene polymorphism was performed by polymerase chain reaction (PCR) and restriction fragment length polymorphism (RFLP). GSTM1 null gene polymorphism was exclusively determined by PCR. Our results were examined by statistical analyses. Results: There were no significant differences in CYP1A1 genotype freque . . .ncies between patients and controls. Furthermore, the frequency of GSTM1 null genotype was higher in patients compared to controls, but it did not reach significance (p=0.622 ?2=0.243 OR=0.94 95% CI=0.75-1.18). Significance was discovered in combined analysis of CYP1A1 and GSTM1 genotypes. In the present study, GSTM1 null genotype with CYP1A1 Ile/Ile genotype combination was significantly more frequent in the patient group than in controls (p=0,04, ?2=4.217). At the same time, possessing both GSTM1 null genotype and CYP1A1 Val variants (Ile/Val+Val/Val) were significantly higher in control group than in patients (p=0.017, ?2=5.468). When the pathological tumor grades were assessed, the frequency of CYP1A1 Val mutant variant with GSTM1 null genotype combination was higher in patients with medium and high-grade tumors than in those with low-grade tumors (p=0.06, ?2=3.527, OR=1.36 95% CI=1.03-1.78). Conclusion: We suggest that the CYP1A1 Ile/Ile genotype with GSTM1 null genotype combination may contribute to the development of bladder cancer in this Turkish population Daha fazlası Daha az

Cacina, C. | Yaylim-Eraltan, I. | Arikan, S. | Saglam, E.K. | Zeybek, U. | İşbir, Turgay

Article | 2010 | In Vivo24 ( 2 ) , pp.179 - 183

Background: CDKN1A (p21WAF1/CIP1) plays an important role in cell cycle regulation. Somatic alterations in genes which regulate cell division have been shown to be related to different types of cancer prognosis and survival. The purpose of this study was to investigate the effect of the CDKN1A Ser31Arg and C20T gene polymorphisms in Turkish patients with colorectal cancer. Patients and Methods: CDKN1A Ser/Arg and C20T polymorphisms were studied in 53 patients with colorectal cancer and 64 healthy controls. Genomic DNA was amplified by polymerase chain reaction (PCR) and genotypes were determinated by the restriction fragment length . . .polymorphism (RFLP) method. Results: There were statistically significant differences in the distribution of CDKN1A Ser/Arg genotypes and allele frequencies between colorectal cancer patients and healthy controls (p=0.040 and p=0.01, respectively). CDKN1A C20T genotype frequency did not show any significant differences between patients and controls. We combined the results for C20T and Ser31Arg polymorphisms and observed that a lower risk of colorectal cancer was associated with CT/SerArg combined genotypes compared to controls and this difference was statistically significant (p=0.024; odds ratio (OR)=0.322, 95% confidence interval (CI)=0.114-0.912). C20T C allele and SerSer genotypes significantly increased risk compared to other combined genotypes (p=0.034; OR=1.265, 95% CI=1.020-1.569). Conclusion: The results of present study demonstrated that, potentially, CDKN1A functional polymorphisms may contribute to the risk of colorectal cancer in Turkish Daha fazlası Daha az