Whole-genome gene expression analysis in urine samples of patients with prostate cancer and benign prostate hyperplasia

WOS: 000415257200022PubMed ID: 28647394Objective: There is an urgent need to find new biomarkers with higher specificity and sensitivity for using early detection of prostate cancer (PrCa) and reducing recurrent unnecessary biopsy rates, psychological and physical stress on the patient, and costs. Being noninvasive, urine-based tests might be suitable in routine practice. The aim of this study was to report the first whole-genome gene expression analysis in urine samples, as noninvasive method, that were obtained from PrCa, benign prostate hyperplasia (BPH), and control groups by using the microarray system from Turkey, to our knowledge. Methods: Whole-genome gene expression profiling was conducted in urine samples of 25 patients with PrCa, 24 patients with BPH, and 11 healthy males by using the Illumina Hi Scan microarray system. Results: The number of probes showing a significant change at the level of expression were 101 and 75 in PrCa-control and BPH-control comparison groups, respectively. Further, 51 of them were the same in both comparison groups. There was no significant change at the level of expression in PrCa-BPH comparison group. Conclusion: This study revealed several candidate biomarkers for early diagnosis of PrCa and contributed to the literature by detecting the differences of gene expression profiles in urine samples of PrCa-control and BPH-control comparison groups using the microarray. However, further studies are needed in larger groups. (C) 2017 Elsevier Inc. All rights reserved.Ege University Scientific Research FundEge University [2012 TIP 048]This study was supported by the Ege University Scientific Research Fund (Grant no.: 2012 TIP 048)

IFNG and IFNGR1 gene polymorphisms in children with nonresponse to the hepatitis B vaccine

WOS: 000332088000007Aim: We investigated the +874 T/A polymorphism in the first intron of the IFNG gene and intronic (CA)(n) polymorphic microsatellite marker of the IFNGR1 gene in child nonresponders to hepatitisB vaccination. Materials & methods: A total of 100 children who had anti-HBs antibody levels 10mIU/ml after vaccination against hepatitisB were included as a responder group. Results: The frequency of the TT genotype of the IFNG (+874 T/A) gene polymorphism was higher in nonresponders (p = 0.003). The frequencies of alleles 170 and 182 for (CA)(n) alleles for the intronic (CA)(n) microsatellite of IFNGR1 were significantly higher in nonresponders (for each, p<0.05). Conclusion: The TT genotype of the IFNG (+874 T/A) gene, and alleles 170 and 182 for (CA)(n) alleles for the intronic (CA)(n) microsatellite of the IFNGR1 gene, may be associated with nonresponse to hepatitisB vaccination.Scientific Projects Council of Ege UniversityEge UniversityThis research was supported by Scientific Projects Council of Ege University. The authors have no other relevant affiliations or financial involvement with any organization or entity with a financial interest in or financial conflict with the subject matter or materials discussed in the manuscript apart from those disclosed

Relationship Between IL1 beta-511C > T and ILRN VNTR Polymorphisms and Keratoconus

WOS: 000329903900008PubMed ID: 24322806Purpose:The aim of this study was to evaluate the relationship between keratoconus (KC) and interleukin-1 (IL1 ) (-511C>T) and interleukin-1 receptor antagonist (IL1RN) variable number of tandem repeat (VNTR) polymorphisms that are potentially associated in their genetic susceptibility to KC.Methods:A total of 121 patients with KC and 121 healthy individuals were enrolled. Blood samples with ethylenediamine tetraacetic acid were obtained, and IL1 (-511C>T) (rs16944) (polymerase chain reaction-restriction fragment length polymorphism method) and IL1RN VNTR polymorphisms (rs2234663) (polymerase chain reaction and agarose gel imaging) were investigated.Results:Genotype and allele distribution for IL1 (-511C>T) and IL1RN VNTR polymorphisms among the KC and healthy groups showed no difference (for all; P > 0.05).Conclusions:Because the genotype and allele frequency of both polymorphisms are identical, it is most likely that IL1-511C>T and IL1RN VNTR polymorphisms do not play a role in the development of KC in the Turkish population

Congenital Disorder of Glycosylation: Clinical and Molecular Characteristics of 9 Patients from Turkey

Ozdemir, Taha Resid/0000-0003-4870-6945;WOS:000602443900011Objective: Congenital defects of glycosylation (CDG) belongs to a group of genetic diseases that lead to impairment in protein, lipid glycosylation and glycosylphosphatidylinositol synthesis. More than 140 types of CDG have been identified and the number is increasing day by day. Since glycosylation is very important for post-translational process and glycosylation is required for half of the proteins in human organism to be able to exert an effect, causes the disease to have an extremely wide clinical spectrum in affected patients. Our aim is to share the clinical features of our patients with CDG and contribute to increase in the awareness of this disease group with highly heterogeneous clinical spectrum. Method: Nine patients from 9 families whose molecular and biochemical diagnosis was confirmed were included in the study. All patients were evaluated by a specialist.in pediatric metabolism Laboratory analysis results and clinical features were obtained from hospital records. Our study presents clinical, biochemical and molecular properties of 9 patients. Results: The patients were detected as having PMM2-CDG (CDG Ia) (n=4), MPI-CDG (CDG Ib) (n=1), ALG3CDG (CDG Id) (n=1), ALG1-CDG (CDG Ik) (n=1), DOLK-CDG (CDG Im) (n=1) and COG4-CDG (CDG IIj) (n=1). Sialotransferrin electrophoresis could be performed in 8 of 9 patients. Six patients were diagnosed using high-throughout next -generation sequencing technologies. in all of our patients previously indentified variants have been detected. Conclusion: Our study is one of the first CDG case series presented in our country. CDG should be kept in mind as an important preliminary diagnosis in patients with multisystemic involvement and neurological findings

New Insight of Tumor Microenvironment in Non-Small Cell Lung Cancer

As in all living cells, cancer cells are evaluating is very important in the frames of tumor development and treatment. As in all evolutionary process, the environment of living cells has an important role. Tumor cells have an environment is called tumor microenvironment, affects the therapeutic response and clinical results. Tumor microenvironments involve various cell types, extracellular matrix substances that are in the niche of cancer cells. The microenvironment is not only important in tumorigenesis but it is effective on therapeutic efficacy. In this review, we carried out the interaction between non-small cell lung cancer and its microenvironment to point out the significance of the tumor environment

Can fetal fractions in the cell-free DNA test predict the onset of fetal growth restriction?

Objective: To investigate the possible predictive value of fetal fraction in the cell-free DNA (cfDNA) test in pregnancies with early- and late-onset fetal growth restriction (FGR)

Congenital Disorder of Glycosylation: Clinical and Molecular Characteristics of 9 Patients from Turkey

Objective: Congenital defects of glycosylation (CDG) belongs to a group of genetic diseases that lead to impairment in protein, lipid glycosylation and glycosylphosphatidylinositol synthesis. More than 140 types of CDG have been identified and the number is increasing day by day. Since glycosylation is very important for post-translational process and glycosylation is required for half of the proteins in human organism to be able to exert an effect, causes the disease to have an extremely wide clinical spectrum in affected patients. Our aim is to share the clinical features of our patients with CDG and contribute to increase in the awareness of this disease group with highly heterogeneous clinical spectrum