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1.
Hum Genomics ; 17(1): 43, 2023 05 18.
Article in English | MEDLINE | ID: mdl-37202799

ABSTRACT

BACKGROUND: HER2-positive breast cancer occurs in 15-20% of breast cancer patients and is characterized by poor prognosis. Trastuzumab is considered the key drug for treatment of HER2-positive breast cancer patients. It improves patient survival; however, resistance to trastuzumab remains a challenge in HER2-positive breast cancer patients. Therefore, the prediction of response to trastuzumab is crucial to choose optimal treatment regimens. The aim of the study was to identify genetic variants that could predict response to anti-HER2-targeted therapy (trastuzumab) using next-generation sequencing. METHOD: Genetic variants in the hotspot regions of 17 genes were studied in 24 Formalin-Fixed Paraffin-Embedded (FFPE) samples using Ion S5 next-generation sequencing system. FFPE samples were collected from HER2­positive breast cancer patients previously treated with anti­HER2­targeted treatment (Trastuzumab). Patients were divided into two groups; trastuzumab-sensitive group and trastuzumab-resistant group based on their response to targeted therapy. RESULTS: We identified 29 genetic variants in nine genes that only occurred in trastuzumab-resistant patients and could be associated with resistance to targeted therapy including TP53, ATM, RB1, MLH1, SMARCB1, SMO, GNAS, CDH1, and VHL. Four variants out of these 29 variants were repeated in more than one patient; two variants in TP53, one variant in ATM gene, and the last variant in RB1 gene. In addition, three genes were found to be mutated only in resistant patients; MLH1, SMARCB1 and SMO genes. Moreover, one novel allele (c.407A > G, p. Gln136Arg) was detected within exon 4 of TP53 gene in one resistant patient. CONCLUSION: NGS sequencing is a useful tool to detect genetic variants that could predict response to trastuzumab therapy.


Subject(s)
Breast Neoplasms , Female , Humans , Alleles , Breast Neoplasms/drug therapy , Breast Neoplasms/genetics , Mutation , Receptor, ErbB-2/genetics , Trastuzumab/therapeutic use
2.
BMC Cancer ; 23(1): 329, 2023 Apr 10.
Article in English | MEDLINE | ID: mdl-37038139

ABSTRACT

BACKGROUND: Most cases of lung cancer are diagnosed at advanced stage. Detection of genetic and epigenetic markers in cell-free DNA (cfDNA) is a promising tool for the diagnosis of lung cancer at an early stage. The aim of this study was to identify non-invasive diagnostic markers in cell free DNA (cfDNA) for non-small cell lung cancer (NSCLC) as it is the most common type of lung cancer. METHODS: We investigated the cfDNA HOXA9 gene promotor methylation by pyrosequencing. Copy number variation of SOX2 and HV2 genes were detected by real-time PCR in cfDNA extracted from plasma samples of 25 newly diagnosed NSCLC patients and 25 age and sex matched controls. RESULTS: Methylation level of HOXA9 was significantly higher in NSCLC patients than controls (p > 0.001). SOX2 showed significantly higher CNV and HV2 showed lower CNV in patients than controls (p > 0.001, p = 0.001 respectively). Receiver Operating Characteristic (ROC) curve analysis for HOXA9 methylation, SOX2 CNV and HV2 CNV showed a discrimination power of 79.4%, 80% and 77.5% respectively and the area under the curve for the combined analysis of the three genes was 0.958 with 88% sensitivity and 100% specificity. CONCLUSIONS: In this study, we suggest a potentially diagnostic panel that may help in detection of lung cancer with high sensitivity and specificity using cell free DNA. This Panel included HOXA9 gene methylation and the CNV of SOX2 and HV2 genes.


Subject(s)
Carcinoembryonic Antigen , Carcinoma, Non-Small-Cell Lung , Cell-Free Nucleic Acids , Homeodomain Proteins , Lung Neoplasms , Carcinoma, Non-Small-Cell Lung/blood , Carcinoma, Non-Small-Cell Lung/diagnosis , Carcinoma, Non-Small-Cell Lung/genetics , Lung Neoplasms/blood , Lung Neoplasms/diagnosis , Lung Neoplasms/genetics , Humans , Male , Female , Adult , Middle Aged , Aged , Cell-Free Nucleic Acids/blood , Promoter Regions, Genetic , DNA Methylation , DNA Copy Number Variations , Carcinoembryonic Antigen/blood , Homeodomain Proteins/blood , SOXB1 Transcription Factors/blood
3.
Biomed Res Int ; 2019: 3457898, 2019.
Article in English | MEDLINE | ID: mdl-31275967

ABSTRACT

To date, the genes associated with susceptibility to Atopic Eczema (AE) are mainly implicated in immunity, inflammation, and maintenance of skin barrier. Little is known about the possible relationship between genes modulating Extra-Cellular Matrix (ECM) and AE etiopathogenesis. In this regard, the primary objective of the present study has been the investigation of susceptibility biomarkers localized within genes encoding collagen proteins. Several studies have shown that polymorphisms within the genes encoding such proteins may generate abnormal connective tissues, making them more susceptible to mechanical stress, loss of epidermal integrity, and aging. We therefore decided to investigate three polymorphisms located in COL6A5, COL8A1, and COL10A1 as potential susceptibility biomarkers for AE in a cohort of 1470 subjects of Mediterranean origin. The genes of interest have been selected considering that the ECM and immune/inflammatory response are strongly dysregulated in AE and other complex disorders. The study confirmed that the susceptibility to AE depends on a complex interaction between latitude, geographical localization, and the differential distribution of genetic variants among populations exposed to similar environmental factors.


Subject(s)
Collagen Type VIII/genetics , Collagen Type VI/genetics , Collagen Type X/genetics , Dermatitis, Atopic/genetics , Genetic Predisposition to Disease , Case-Control Studies , Humans , Mediterranean Region , Polymorphism, Single Nucleotide/genetics
4.
Mol Biol Rep ; 45(5): 1001-1011, 2018 Oct.
Article in English | MEDLINE | ID: mdl-30030774

ABSTRACT

HIRA is a histone chaperone known to modulate gene expression through the deposition of H3.3. Conditional knockout of Hira in embryonic mouse hearts leads to cardiac septal defects. Loss of function mutation in HIRA, together with other chromatin modifiers, was found in patients with congenital heart diseases. However, the effects of HIRA on gene expression at earlier stages of cardiogenic mesoderm differentiation have not yet been studied. Differentiation of mouse embryonic stem cells (mESCs) towards cardiomyocytes mimics some of these early events and is an accepted model of these early stages. We performed RNA-Seq and H3.3-HA ChIP-seq on both WT and Hira-null mESCs and early cardiomyocyte progenitors of both genotypes. Analysis of RNA-seq data showed differential down regulation of cardiovascular development-related genes in Hira-null cardiomyocytes compared to WT cardiomyocytes. We found HIRA-dependent H3.3 deposition at these genes. In particular, we observed that HIRA influenced directly the expression of the transcription factors Gata6, Meis1 and Tbx2, essential for cardiac septation, through H3.3 deposition. We therefore identified new direct targets of HIRA during cardiac differentiation.


Subject(s)
Cell Cycle Proteins/metabolism , Histone Chaperones/metabolism , Mouse Embryonic Stem Cells/cytology , Myocytes, Cardiac/cytology , Sequence Analysis, RNA/methods , Transcription Factors/genetics , Animals , Cell Differentiation , Cell Line , Down-Regulation , Enhancer Elements, Genetic , GATA6 Transcription Factor/genetics , Heart Septal Defects/embryology , Heart Septal Defects/metabolism , Histones/metabolism , Loss of Function Mutation , Mice , Mouse Embryonic Stem Cells/metabolism , Myeloid Ecotropic Viral Integration Site 1 Protein/genetics , Myocytes, Cardiac/metabolism , T-Box Domain Proteins/genetics , Transcription Factors/metabolism
5.
Environ Sci Pollut Res Int ; 24(13): 12455-12461, 2017 May.
Article in English | MEDLINE | ID: mdl-28361399

ABSTRACT

Occupational exposure to antimony has gained much interest when specific toxic effects were noticed among workers processing antimony. Thus, the aim of the present work was to investigate the potential DNA oxidative damage occurring among Egyptian workers occupationally exposed to antimony trioxide. The study was conducted on 25 subjects exposed to antimony trioxide while working in the polymerization process of polyester in Misrayon and Polyester Fiber Company, KafrEldawwar, Beheira, Egypt. Urinary antimony levels were assessed using inductive coupled plasma-optical emission spectrometry (ICP-OES) and considered as a biological exposure index. DNA damage and total oxidant capacity (TOC) were assessed using ELISA. DNA damage was detected in the form of increased apurinic/apyrimidinic (AP) sites among antimony trioxide-exposed workers compared to control subjects, but it could not be explained by oxidative mechanisms due to lack of significant correlation between DNA damage and measured TOC. Antimony trioxide might have a genotoxic impact on occupationally exposed workers which could not be attributed to oxidative stress in the studied cases.


Subject(s)
Antimony , Occupational Exposure , DNA , DNA Damage , Egypt , Humans
6.
Ren Fail ; 39(1): 77-82, 2017 Nov.
Article in English | MEDLINE | ID: mdl-27788614

ABSTRACT

RATIONAL: Septic acute kidney injury (AKI) is a prevalent complication in intensive care units with an increased incidence of complications. OBJECTIVE: The aim of the present study was to assess the use of high-resolution melting curve (HRM) analysis in investigating whether the genetic polymorphisms; -308 G/A of tumor necrosis factor-α (TNF-α), and -1082 G /A of Interleukin-10 (IL-10) genes may predispose patients diagnosed with severe sepsis to the development of AKI. METHODS: One hundred and fifty patients with severe sepsis participated in the present study; only sixty-six developed AKI. Both polymorphisms were studied using HRM analysis. MAIN FINDINGS: The low producer genotype of both studied polymorphism of TNF-α and IL-10 genes was associated with AKI. Using logistic regression analysis, the low producer genotypes remained an independent risk factor for AKI. A statistically significant difference was detected between both studied groups as regards the low producer genotype in both TNF-α (-308 G/A) and interleukin-10 (IL-10) (-1082 G/A) polymorphisms being prevalent in patients developing AKI. Principle conclusions: The low producer genotypes of both TNF-α (-308 G/A) and IL-10 (-1082 G/A) polymorphisms could be considered a risk factor for the development of AKI in critically ill patients with severe sepsis, thus management technique implemented for this category should be modulated rescuing this sector of patients from the grave deterioration to acute kidney injury. Using HRM for genotyping proved to be a highly efficient, simple, cost-effective genotyping technique that is most appropriate for the routine study of large-scale samples.


Subject(s)
Acute Kidney Injury/genetics , Interleukin-10/genetics , Polymorphism, Genetic , Sepsis/complications , Tumor Necrosis Factor-alpha/genetics , Acute Kidney Injury/etiology , Female , Gene Frequency , Genetic Predisposition to Disease , Humans , Intensive Care Units , Logistic Models , Male , Middle Aged , Multivariate Analysis , Risk Factors
7.
J Clin Lab Anal ; 30(6): 1100-1105, 2016 Nov.
Article in English | MEDLINE | ID: mdl-27184562

ABSTRACT

BACKGROUND: H19 is one of the long non-coding RNAs (LncRNA) that is related to the progression of many diseases including cancers. This work was carried out to study the level of the long non-coding RNA; H19, in plasma of patients with gastric cancer (GC) and to assess its significance in their clinical management. METHODS: Sixty-two participants were enrolled in the present study. The first group included 32 GC patients. The second group was formed of 30 age and sex matched healthy volunteers serving as a control group. Plasma samples were used to assess H19 gene expression using real-time quantitative PCR technique. RESULTS: H19 expression was up-regulated and closely related to TNM cancer stages in GC patients. Using Receiver Operating Characteristic (ROC) curve analysis, a cutoff level of 0.5 was set for H19 expression to diagnose GC cases achieving a sensitivity of 68.75%, specificity of 56.67%, positive predictive value (PPV) 62.86% and negative predictive value (NPV) 62.96% with an area under the curve (AUC) of 72.4%. Combined use of Carcinoembryonic Antigen (CEA) and H19 level in GC diagnosis was evaluated using ROC curve revealing improvement in performance with an area under the curve of 80.4%. CONCLUSIONS: Up-regulation of H19 is closely associated with gastric cancer displaying progressive up-regulation in advanced stages of the disease implementing its role as a potential non-invasive diagnostic biomarker in gastric cancer and as a novel tool in gastric cancer management with better performance achieved on using both CEA and H19 simultaneously.


Subject(s)
RNA, Long Noncoding/blood , RNA, Long Noncoding/genetics , Stomach Neoplasms/blood , Stomach Neoplasms/genetics , Up-Regulation/genetics , Adult , Carcinoembryonic Antigen/genetics , Case-Control Studies , Female , Genetic Testing , Humans , Liver Function Tests , Male , Middle Aged , ROC Curve , Regression Analysis
8.
Clin Lab ; 62(11): 2149-2154, 2016 Nov 01.
Article in English | MEDLINE | ID: mdl-28164673

ABSTRACT

BACKGROUND: Chronic kidney disease (CKD) is characterized by progressive irreversible deterioration of renal functions. Advanced stages of CKD are associated with oxidative stress due to the imbalance between oxidant production and antioxidant defense mechanisms. Survival of patients with end stage renal diseases is maintained on variable forms of renal replacement therapies (RRT) which include peritoneal dialysis, hemodialysis, and sometimes renal transplantation. In humans, Nuclear Respiratory Factor 1 (NRF-1) gene encodes for a transcription factor that, together with the transcriptional co-activator encoded by Peroxisome Proliferator activated Receptor Gamma coactivator 1 Alpha (PGC1-a) gene, stimulates the expression of a broad set of nuclear genes (as COX6C) which are involved in mitochondrial biogenesis and functions. As mitochondria are considered a major source of reactive oxidant species, the objective of the present study was to assess mitochondrial oxidative dysregulation occurring in chronic kidney disease patients undergoing hemodialysis employing NRF-1 and COX6C genes' expression as an indicator of mitochondrial oxidative metabolism. METHODS: Forty-nine chronic kidney disease patients undergoing intermittent hemodialysis were included in the present study. A group of thirty-three age- and gender- matched healthy volunteers served as a control group. Assessment of expression of NRF-1 and COX6C genes was performed using quantitative real-time PCR technique. RESULTS: NRF-1 and COX6C expression showed a statistically significant difference between both studied groups being down-regulated in CKD patients. In addition, malondialdehyde (MDA) levels were higher in patients on hemodialysis indicating lipid peroxidation. A negative correlation was detected between MDA level and expression of both NRF-1 and COX6C genes. CONCLUSIONS: Chronic kidney disease patients undergoing hemodialysis might be subjected to potential mitochondrial oxidative dysregulation with subsequent possible vascular and tissue injury.


Subject(s)
Kidney/metabolism , Mitochondria/metabolism , Nuclear Respiratory Factor 1/metabolism , Oxidative Stress , Renal Dialysis , Renal Insufficiency, Chronic/therapy , Adult , Case-Control Studies , Down-Regulation , Electron Transport Complex IV/genetics , Electron Transport Complex IV/metabolism , Female , Humans , Lipid Peroxidation , Male , Malondialdehyde/metabolism , Middle Aged , Nuclear Respiratory Factor 1/genetics , Renal Insufficiency, Chronic/genetics , Renal Insufficiency, Chronic/metabolism , Treatment Outcome
9.
Genet Test Mol Biomarkers ; 19(11): 604-9, 2015 Nov.
Article in English | MEDLINE | ID: mdl-26447820

ABSTRACT

AIM: To assess the use of mitochondrial DNA (mtDNA) content as a noninvasive molecular biomarker in hepatitis C virus-related hepatocellular carcinoma (HCV-HCC). MATERIALS AND METHODS: A total of 135 participants were enrolled in the study. Equal numbers of subjects were enrolled in each of three clinically defined groups: those with HCV-related cirrhosis (HCV-cirrhosis), those with HCV-HCC, and a control group of age- and sex-matched healthy volunteers with no evidence of liver disease. mtDNA concentrations were determined using a quantitative real-time polymerase chain reaction (PCR) technique. RESULTS: mtDNA content was lowest among the HCV-HCC cases. No statistically significant difference was observed between the group of HCV-cirrhosis and the control group as regards mtDNA level. HCC patients with multicentric hepatic lesions had significantly lower mtDNA content than HCC patients with less advanced disease. When a receiver operating characteristic curve analysis was used, a cutoff of 34 was assigned for mtDNA content to distinguish between HCV-HCC and HCV-cirrhosis patients who are not yet complicated by malignancy. Lower mtDNA content was associated with HCC risk when using either or both healthy controls and HCV-cirrhosis groups for reference. CONCLUSIONS: mtDNA content analysis could serve as a noninvasive molecular biomarker that reflects tumor burden in HCV-HCC cases and could be used as a predictor of HCC risk in patients of HCV-cirrhosis. In addition, the nonsignificant difference of mtDNA level between HCV-cirrhosis patients and healthy controls could eliminate the gray zone created by the use of alpha-fetoprotein in some cirrhotic patients.


Subject(s)
Carcinoma, Hepatocellular/genetics , Carcinoma, Hepatocellular/virology , DNA, Mitochondrial/genetics , Hepatitis C/genetics , Liver Cirrhosis/genetics , Liver Neoplasms/genetics , Liver Neoplasms/virology , Adult , Aged , Case-Control Studies , DNA Copy Number Variations , Egypt , Female , Hepatitis C/pathology , Humans , Male , Middle Aged , ROC Curve , Risk Factors
11.
Pediatr Dermatol ; 32(3): 429-30, 2015.
Article in English | MEDLINE | ID: mdl-25580996

ABSTRACT

Atopic dermatitis (AD) is the most common chronic inflammatory disease of early childhood. This study shows that nitric oxide levels positively correlate with the clinical severity of AD, waist:height ratio, and weight.


Subject(s)
Dermatitis, Atopic/blood , Nitric Oxide/blood , Waist-Height Ratio , Adolescent , Biomarkers/blood , Child , Child, Preschool , Female , Humans , Infant , Male
12.
Saudi J Kidney Dis Transpl ; 25(2): 285-93, 2014 Mar.
Article in English | MEDLINE | ID: mdl-24625993

ABSTRACT

Polyoma virus-associated nephropathy is an increasingly recognized cause of graft dysfunction among kidney transplant recipients and could be the result of use of potent immunosuppression following transplantation. Because there is no safe and effective anti-viral therapy available presently, screening-based prevention and pre-emptive strategy are recommended. This study, which was conducted at the Nephrology Unit, Internal Medicine Department, Alexandria University, consisted of two phases: Phase 1 was a cross-sectional study and phase 2 was a 6-month follow-up study only for polyoma virus-positive cases. Phase 1 included 75 renal allograft recipients from living donors. Urine cytology for decoy cells and quantitative real-time blood polymerase chain reaction (PCR) for the BK virus (BKV) were performed on all the study patients. Renal biopsy was performed only in patients with deteriorating renal function associated with positive urine cytology. Patients who showed positive urine cytology for decoy cells and/or positive quantitative BKV PCR assay were followed-up for six months. During follow-up, the serum creatinine level, with or without urine cytology for decoy cells, and BKV PCR viral load assay were performed. Among the 75 kidney transplant recipients studied, eight were positive for decoy cells (11%), three showed viremia by quantitative PCR for BKV (4.1%), while two others showed nephropathy (2.7%) in the form of tubulointerstitial nephritis with intra-nuclear inclusions in the tubular cells. Cases with stable renal function and positive decoy cells or viremia cleared the virus spontaneously during follow-up without any intervention. Only one case with biopsyproven nephropathy and deteriorating graft function, with undetectable BKV in blood, lost the graft while another case with viremia died during follow-up due to septicemia. Our study suggests that polyoma virus should be considered as a cause of nephropathy in renal transplant recipients. Further research is required to understand this entity better.


Subject(s)
Kidney Diseases/virology , Kidney Transplantation , Polyomavirus Infections/complications , Primary Graft Dysfunction/virology , Tumor Virus Infections/complications , Adult , BK Virus , Cross-Sectional Studies , Female , Humans , Immunohistochemistry , Intranuclear Inclusion Bodies/metabolism , Kidney/metabolism , Male , Middle Aged , Young Adult
13.
Arch Gynecol Obstet ; 288(1): 167-72, 2013 Jul.
Article in English | MEDLINE | ID: mdl-23361457

ABSTRACT

PURPOSE: To evaluate human epididymis protein 4 (HE4) as an extrabiomarker to cancer antigen 125 (CA125) to improve the detection of ovarian carcinoma. METHODS: Sixty patients with ovarian carcinoma, 50 patients with benign ovarian tumors and 30 healthy women were included in the present study. Serum concentration of HE4 was assayed using ELISA technique, while CA125 was assayed using chemiluminescent enzyme immunoassay. RESULTS: The median CA125 and HE4 serum values were significantly higher among ovarian cancer patients when compared with healthy control However, the median serum levels of CA125 but not HE4 were significantly higher among patients with benign ovarian tumors as compared to healthy women. Based on the receiver operator characteristics curve analysis, HE4 had higher sensitivities than CA125 for the detection of ovarian cancer at 90, 95 and 98 % specificities and the combination of both markers yielded a higher sensitivity than either alone. However, CA125 but not HE4 had higher sensitivities for the detection of benign ovarian tumors at the same specificities. In addition, a positive correlation was observed between HE4 and CA125 among patients with ovarian carcinoma. CONCLUSION: HE4 is a valuable marker for ovarian cancer diagnosis and when combined with CA125, they had a higher sensitivity at a set specificity, thus providing a more accurate predictor of ovarian cancer than either alone.


Subject(s)
Biomarkers, Tumor/blood , CA-125 Antigen/blood , Carcinoma/blood , Cystadenoma, Serous/blood , Ovarian Neoplasms/blood , Proteins/metabolism , Adult , Area Under Curve , Carcinoma/diagnosis , Case-Control Studies , Double-Blind Method , Endometriosis/blood , Female , Humans , Middle Aged , Ovarian Neoplasms/pathology , ROC Curve , WAP Four-Disulfide Core Domain Protein 2 , Young Adult
14.
Clin Lab ; 58(9-10): 1057-61, 2012.
Article in English | MEDLINE | ID: mdl-23163124

ABSTRACT

BACKGROUND: Replication of hepatitis B virus (HBV) in the absence of a detectable hepatitis B surface antigen (HBsAg) and occasionally other HBV serologic markers has been called occult hepatitis B infection. As the presence of OBI represents a possible threat to those on hemodialysis, being a high risk group, this study was carried out to investigate the prevalence of OBI in a cohort of Egyptian patients maintained on hemodialysis and to evaluate the protocol of HBV detection in the Alexandria Main University Hospital dialysis unit. METHODS: Patients enrolled in the study included ninety three HBs-Ag negative Egyptian patients maintained on hemodialysis. Liver function tests, serological HBV markers, HCV antibodies, and quantification of HBV viral DNA titer were assayed for all participants in the study. RESULTS: Twenty five individuals were HBV DNA-positive, representing 26.8% of the tested patients. As regards HBV DNA-positive cases, eighteen (72%) patients were HCV-Ab positive. Three patients (12%) were positive to both anti-HBc and anti-HBs and only one patient (4%) was negative to both antibodies. Fifteen patients (60%) were positive to anti-HBc only, while 6 patients (24%) were positive to anti-HBs only. CONCLUSIONS: OBI is relatively common in Egyptian dialysis patients at the Alexandria Main University Hospital dialysis unit, and it might be a possible mechanism of transmission of HBV infection between them. The protocol implemented in the Alexandria Main University Hospital dialysis unit for detection of HBV positive patients should be refined to screening with sensitive PCR-based assays for all dialysis patients regardless of biochemical or serological findings.


Subject(s)
Carrier State/diagnosis , Hepatitis B virus/isolation & purification , Hepatitis B/diagnosis , Kidney Failure, Chronic/pathology , Renal Dialysis , Viremia/diagnosis , Adolescent , Adult , Aged , Carrier State/virology , Comorbidity , DNA, Viral/blood , Egypt/epidemiology , Female , Hepatitis B/blood , Hepatitis B/epidemiology , Hepatitis B Surface Antigens/blood , Hepatitis B virus/genetics , Hepatitis B virus/immunology , Humans , Kidney Failure, Chronic/blood , Kidney Failure, Chronic/epidemiology , Liver Function Tests , Male , Middle Aged , Prevalence , Viremia/blood , Viremia/therapy , Young Adult
15.
Scand J Clin Lab Invest ; 71(8): 641-6, 2011 Dec.
Article in English | MEDLINE | ID: mdl-22023039

ABSTRACT

PURPOSE: This work was carried out to study the level of pretreatment hepatic expression of Toll like receptor 3 (TLR3) among chronic HCV patients, aiming to determine if there are consistent differences in gene expression, between those who show complete early virological response (cEVR) at week-12 of Pegylated-Interferon α-2a plus ribavirin treatment and others who are not responding to this combination, also if this could be used to predict treatment outcomes. METHOD: A total of 61 chronic hepatitis C patients were enrolled in the study. For all of them, baseline hepatitis C virus (HCV) viral load was determined and TLR3 gene expression was examined in their hepatic percutaneous needle biopsy specimens using a real time-polymerase chain reaction technique. Hepatic TLR3 was also traced using immunohistochemistry. All patients followed a 12-week regimen of Pegylated-Interferon α-2a plus ribavirin then post-treatment viral load was assayed. RESULTS: Hepatic expression of TLR3 was significantly increased in the non-responder group as compared to those who showed complete early virological response to the used treatment regimen. Using receiver operator characteristic (ROC) curve analysis, a cutoff level of 1.5 was set for TLR3 expression to distinguish responders from non-responders to the 12-week treatment regimen used. CONCLUSION: In conclusion, measuring the hepatic expression of the interferon stimulated gene, TLR3 could provide a new molecular marker for pre-treatment prediction of complete early viral clearance, thus helping in patients' selection and optimizing treatment outcomes.


Subject(s)
Antiviral Agents/administration & dosage , Biomarkers/metabolism , Hepacivirus/drug effects , Hepatitis C, Chronic/genetics , Interferon-alpha/administration & dosage , Polyethylene Glycols/administration & dosage , RNA, Viral/analysis , Ribavirin/administration & dosage , Toll-Like Receptor 3/metabolism , Adult , Antiviral Agents/therapeutic use , Biopsy , Dendritic Cells/immunology , Dendritic Cells/metabolism , Drug Therapy, Combination , Female , Gene Expression , Genotype , Hepacivirus/growth & development , Hepatitis C, Chronic/diagnosis , Hepatitis C, Chronic/drug therapy , Hepatitis C, Chronic/immunology , Hepatitis C, Chronic/virology , Humans , Interferon-alpha/therapeutic use , Liver , Male , Middle Aged , Polyethylene Glycols/therapeutic use , Predictive Value of Tests , ROC Curve , Real-Time Polymerase Chain Reaction , Recombinant Proteins/administration & dosage , Recombinant Proteins/therapeutic use , Ribavirin/therapeutic use , Toll-Like Receptor 3/genetics , Toll-Like Receptor 3/immunology , Treatment Outcome , Viral Load/drug effects
16.
Genet Test Mol Biomarkers ; 15(12): 861-6, 2011 Dec.
Article in English | MEDLINE | ID: mdl-21699405

ABSTRACT

AIM: This work investigates the prevalence of G2019S mutation of the leucine-rich repeat kinase 2 (LRRK2) gene in a cohort of Egyptian patients with sporadic Parkinson's disease (PD) and its relation to various features of the disease. MATERIALS AND METHODS: The study included 113 patients with sporadic PD and 87 healthy individuals as a control group. Clinical assessment was done using the Unified PD Rating Scale (UPDRS) and staging of PD was done according to Hoehn-Yahr score. The G2019S mutation was detected by polymerase chain reaction (PCR) followed by restriction digestion; results were confirmed using a 5' nuclease allelic discrimination real-time PCR method. RESULTS: The G2019S mutation was detected in 11 patients (9.7%) with PD, all of whom were heterozygous, but it was not present in any of the controls. Among PD patients, carriers of the G2019S mutation had significantly higher UPDRS motor score and a higher score for resting tremor than noncarriers (p=0.019 and p=0.004, respectively). CONCLUSIONS: The G2019S mutation in the LRRK2 gene is quite common in Egyptian patients with sporadic PD. The mutation is associated with a higher degree of motor effect but does not seem to affect mentation or behavioral aspects of the disease.


Subject(s)
Genetic Predisposition to Disease , Mutation , Parkinson Disease/genetics , Parkinson Disease/physiopathology , Protein Serine-Threonine Kinases/genetics , Aged , Cohort Studies , DNA Mutational Analysis , Egypt/epidemiology , Female , Gene Frequency , Humans , Leucine-Rich Repeat Serine-Threonine Protein Kinase-2 , Male , Middle Aged , Parkinson Disease/diagnosis , Parkinson Disease/epidemiology , Polymerase Chain Reaction/methods , Polymorphism, Restriction Fragment Length , Prevalence , Severity of Illness Index
17.
Genet Test Mol Biomarkers ; 15(10): 667-70, 2011 Oct.
Article in English | MEDLINE | ID: mdl-21631298

ABSTRACT

AIM: The aim of this study was to evaluate the diagnostic potential of the quantification of glutathione-S-transferase P1 (GSTP1) gene hypermethylation in molecular detection of prostate cancer in tissue biopsies. METHODS: One hundred fourteen male patients were enrolled in the study; 44 patients with histopathologically confirmed prostate adenocarcinoma, 20 patients with variable degrees of prostate intraepithelial neoplasia, and 50 with benign prostatic hyperplasia, who served as a control group. Real-time quantitative methylation-specific polymerase chain reaction was used for assessment of methylation of the promoter region of the GSTP1 gene. RESULTS: Methylation of the GSTP1 promotor was detected in 24% of patients with benign prostatic hyperplasia, 60% of patients with prostate intraepithelial neoplasia, and in 86.3% of prostate adenocarcinoma patients. A statistically significant difference in the GSTP1/MYOD1 (myogenic differentiation 1gene) methylation ratios among the three groups was observed (p=0.0001). At the cutoff value of 9, GSTP1/MYOD1 methylation ratios showed sensitivity in the detection of prostate adenocarcinoma of 71.8% and specificity of 96%. CONCLUSIONS: Methylation of the GSTP1 promotor is a common molecular alteration in prostate cancer that may be a useful adjunct to serum screening tests and digital rectal examination findings and the use of quantitative real-time methylation-specific polymerase chain reaction is a promising technique that often distinguishes malignant from nonmalignant prostate disease.


Subject(s)
Adenocarcinoma/diagnosis , DNA Methylation/physiology , Glutathione S-Transferase pi/genetics , Molecular Diagnostic Techniques/methods , Prostatic Neoplasms/diagnosis , Adenocarcinoma/genetics , Adenocarcinoma/pathology , Case-Control Studies , Diagnosis, Differential , Glutathione S-Transferase pi/metabolism , Glutathione S-Transferase pi/physiology , Humans , Male , Neoplasm Staging , Predictive Value of Tests , Prostatic Hyperplasia/diagnosis , Prostatic Hyperplasia/genetics , Prostatic Hyperplasia/pathology , Prostatic Intraepithelial Neoplasia/diagnosis , Prostatic Intraepithelial Neoplasia/genetics , Prostatic Intraepithelial Neoplasia/pathology , Prostatic Neoplasms/genetics , Prostatic Neoplasms/pathology , Sensitivity and Specificity
18.
Genet Test Mol Biomarkers ; 15(9): 627-31, 2011 Sep.
Article in English | MEDLINE | ID: mdl-21488716

ABSTRACT

AIM: This study evaluates the use of cell-free fetal DNA in the plasma of RhD-negative women for noninvasive early detection of fetal RhD status and gender. METHOD: Ninety RhD-negative pregnant women were enrolled in the study. Amplification by real-time polymerase chain reaction (PCR) of RhD gene sequences and SRY gene sequence for the diagnosis of fetal RhD and sex was performed. RESULTS: Among 90 RhD-negative women, according to phenotypic diagnosis, there were 61 RhD-positive and 29 RhD-negative fetuses. Also, 37 were males and 53 were females. In the first trimester, the sensitivity and the diagnostic accuracy of real-time PCR for Rh genotyping were 93.5% and 91.1%, increasing to 100% and 97.78%, respectively, in the second trimester. With regard to fetal sex determination, in the first trimester, PCR results had a sensitivity of 95.2% and a diagnostic accuracy of 97.8%, both increasing to 100% in the second trimester. CONCLUSION: The use of cell-free fetal DNA in prenatal noninvasive early detection of fetal RhD status and gender by real-time PCR is highly sensitive and accurate as early as the 11th week of gestation for RhD status and the 7th week of gestation for fetal sex.


Subject(s)
DNA/analysis , DNA/blood , Fetus/metabolism , Prenatal Diagnosis/methods , Rh-Hr Blood-Group System/genetics , Sex Determination Analysis/methods , Adult , Blood Chemical Analysis/methods , DNA/metabolism , Female , Gestational Age , Humans , Male , Molecular Diagnostic Techniques , Mothers , Pregnancy/blood , Pregnancy/genetics , Pregnancy Trimester, First/blood , Pregnancy Trimester, First/genetics , Real-Time Polymerase Chain Reaction/methods , Rh-Hr Blood-Group System/analysis , Sensitivity and Specificity , Young Adult
19.
Genet Test Mol Biomarkers ; 14(2): 263-8, 2010 Apr.
Article in English | MEDLINE | ID: mdl-20151816

ABSTRACT

BACKGROUND: Familial Mediterranean fever (FMF) is an autosomal recessive disorder characterized by recurrent attacks of fever and serositis. The disease affects mainly Mediterranean populations and is caused by mutations in the MEFV gene. AIM: This work was carried out to identify and determine the frequencies of MEFV gene mutations in Egyptian patients in whom FMF was diagnosed. METHODS: We investigated 316 patients with a clinical diagnosis of FMF for 12 MEFV mutations including the 5 most common known mutations M694V, V726A, M694I, M680I, and E148Q by allele-specific hybridization. RESULTS: Mutations were detected in 182 (57.6%) patients: 20 were homozygous, 80 were compound heterozygous, and 82 had only one identifiable mutant allele. In patients with clinically definite FMF (n = 112), no mutations were detected in 28 patients; whereas in patients with clinically unlikely FMF (n = 48), genetic analysis established the diagnosis in 6 patients. Overall, 10 mutations were detected in our patients. The most common were M694I (34%), E148Q (22.7%), V726A (15.6%), M680I (12.1%), and M694V (7.8%). M694V was observed in severe disease and in patients with amyloidosis. CONCLUSION: We were able to identify a wide spectrum of MEFV mutations in Egyptian patients in whom FMF was diagnosed. Frequencies of individual mutations showed some differences from those in other Mediterranean populations.


Subject(s)
Cytoskeletal Proteins/genetics , Familial Mediterranean Fever/genetics , Mutation, Missense , Adult , Amino Acid Substitution , Child , Cohort Studies , Egypt , Female , Gene Frequency , Genes, Recessive , Genetic Association Studies , Heterozygote , Homozygote , Humans , Male , Pyrin
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