Browsing by Author "Pornlada Nuchnoi"

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    The absolute counting of red cell-derived microparticles with red cell bead by flow rate based assay
    (2009-06-17) Duangdao Nantakomol; Malika Imwong; Ingfar Soontarawirat; Duangporn Kotjanya; Chulalak Khakhai; Jun Ohashi; Pornlada Nuchnoi; Naresuan University; Mahidol University; University of Tsukuba; Chulalongkorn University
    Background: Activation of red blood cell is associated with the formation of red cell-derived microparticles (RMPs). Analysis of circulating RMPs is becoming more refined and clinically useful. A quantitative Trucount™ tube method is the conventional method uses for quantitating RMPs. In this study, we validated a quantitative method called "flow rate based assay using red cell bead (FCB)" to measure circulating RMPs in the peripheral blood of healthy subjects. Methods: Citrated blood samples collected from 30 cases of healthy subjects were determined the RMPs count by using double labeling of annexin V-FITC and anti-glycophorin A-PE. The absolute RMPs numbers were measured by FCB, and the results were compared with the Trucount™ or with flow rate based calibration (FR). Statistical correlation and agreement were analyzed using linear regression and Bland-Altman analysis. Results: There was no significant difference in the absolute number of RMPs quantitated by FCB when compared with those two reference methods including the Trucount™ tube and FR method. The absolute RMPs count obtained from FCB method was highly correlated with those obtained from Trucount™ tube (r2 - 0.98, mean bias 4 cell/μl, limit of agreement [LOA] - 20.3 to 28.3 cell/μl), and FR method (r2 = 1, mean bias 10.3 cell/μl, and LOA - 5.5 to 26.2 cell/μl). Conclusion: This study demonstrates that FCB is suitable and more affordable for RMPs quantitation in the clinical samples. This method is a low cost and interchangeable to latex bead-based method for generating the absolute counts in the resource-limited areas. © 2008 Clinical Cytometry Society.
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    Affordable technology for enumeration of the absolute CD4 T-lymphocyte count by cell bead assay
    (2010-07-01) Duangdao Nantakomol; Supantitra Chanprasert; Suphan Soogarun; Malika Imwong; Jun Ohashi; Pornlada Nuchnoi; Chulalongkorn University; Mahidol University; University of Tsukuba
    The quantitative BD Trucount (San Jose, CA) tube method is the conventional but expensive method to quantitate CD4+T-lymphocyte (CD4) counts, and this may be beyond the means of countries with limited resources. In this study, we validated a quantitative method known as a cell-bead (CB) assay to quantitate CD4 counts in the peripheral blood of healthy subjects. The absolute CD4 count obtained from the CB method was highly correlated with those obtained from the Trucount tube (r2=0.98, y=26.73+1.01x, P<0.0001 and a mean bias of 34.8 cell/μL, limit of agreement [LOA] -34.8-104.4 cell/μL) and flow rate-based assay method (r2=0.97; y=69.51 + 0.88x, P<0.0001 and a mean bias -53.5 cell/μL, LOA -149.4-42.3 cell/μL). This study demonstrates that the CB method is suitable and more affordable for CD4 quantitation. This method is inexpensive and interchangeable with the latex bead-based methods for generating absolute counts in resource-limited areas.
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    Association of ADAMTS13 polymorphism with cerebral malaria
    (2011-12-15) Sirima Kraisin; Izumi Naka; Jintana Patarapotikul; Duangdao Nantakomol; Pornlada Nuchnoi; Hathairad Hananantachai; Naoyuki Tsuchiya; Jun Ohashi; University of Tsukuba; Chulalongkorn University; Mahidol University
    Background: Cerebral malaria is one of the most severe manifestations of Plasmodium falciparum malaria. The sequestration of parasitized red blood cells (PRBCs) to brain microvascular endothelium has been shown to contribute to the pathophysiology of cerebral malaria. Recent studies reported increased levels of von Willebrand factor (VWF) and reduced activity of VWF-cleaving protease, ADAMTS13 (a disintegrin and metalloproteinase with a thrombospondin type 1 motif, member 13), in patients with cerebral malaria. Methods. Association of six single nucleotide polymorphisms (SNPs) of the ADAMTS13 gene with cerebral malaria was examined in 708 Thai patients with P. falciparum malaria. Results: Among six SNPs, the derived allele of a SNP located in intron 28, rs4962153-A, was significantly associated with protection against cerebral malaria when 115 cerebral malaria patients were compared with 367 mild malaria patients (Fisher's exact P-value = 0.0057; OR = 0.27; 95% CI = 0.096-0.76). Significant association was also detected between 115 cerebral malaria and 593 non-cerebral malaria (226 non-cerebral severe malaria and 367 mild malaria) patients (Fisher's exact P-value = 0.012; OR = 0.30; 95% CI = 0.11-0.83). Conclusions: Excessive adhesion of PRBCs to the platelet-decorated ultra-large VWF (ULVWF) appears to enhance the sequestration of PRBCs to cerebral microvascular endothelium. The genetic association observed in the present study implies that the regulation of platelet-decorated ULVWF strings by ADAMTS13 may play a role in the development of cerebral malaria. © 2011 Kraisin et al; licensee BioMed Central Ltd.
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    Cervical Cancer Markers: Epigenetics and microRNAs
    (2018-03-21) Vishuda Laengsri; Usanee Kerdpin; Chotiros Plabplueng; Lertyot Treeratanapiboon; Pornlada Nuchnoi; Naresuan University; Mahidol University
    © American Society for Clinical Pathology 2018. All rights reserved. Gynecologic malignant neoplasms are a severe health problem among female patients, of which cervical cancer (CC), in particular, is a common disease leading to high mortality rates. Despite extensive attempts by researchers to solve the molecular mystery of CC, the mechanisms of its pathogenesis remain unclear. Tumor markers used in the clinical laboratory, such as squamous cell carcinoma (SCC), cancer antigen (CA)-125, and CA19-9, provide some help in diagnosing patients with CC. However, finding new molecular markers with high sensitivity and specificity is necessary. This review focuses on the role of epigenetic changes, particularly microRNAs (miRNAs), to CC. Several miRNAs that associated with CC potentially have the advantage of being early biomarkers. Moreover, altered serum miRNAs or single nucleotide polymorphisms in miRNA patterns may predict disease progression.
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    Clinical and laboratory update on the DEL variant
    (2014-11-01) Pornlada Nuchnoi; Jairak Thongbus; Apapan Srisarin; Usanee Kerdpin; Virapong Prachayasittikul; Mahidol University; Thai Red Cross Agency; Naresuan University
    Serological assays for the RhD blood group are based on detection of the RhD antigen on human red blood cells using a specific anti-D antibody. The weak expression of the RhD antigen in the DEL variant hinders the sensitivity of conventional serological assays. Evidence of anti-D immunization in patients with D-negativity who have received DEL-variant blood units has been reported in various populations. This observation has prompted the need for genetic epidemiological and clinical data on the DEL variant in the development of DEL molecular diagnostic testing. This review highlights the molecular features of the DEL variant, the clinical consequences of DEL-blood transfusion, and current approaches for detection of the DEL-variant for donor screening and transfusion.
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    Comprehensive Molecular Analysis of Serologically D-Negative and Weak/Partial D Phenotype in Thai Blood Donors
    (2019-01-01) Jairak Thongbut; Loann Raud; Claude Férec; Charuporn Promwong; Pornlada Nuchnoi; Yann Fichou; Thai Red Cross Agency; Hopital Morvan; Université de Brest (UBO); Mahidol University; Laboratory of Excellence GR-Ex
    © 2019 S. Karger AG, Basel. Background: Molecular genetics of the Rh system has been extensively studied in Caucasians, Black Africans, East Asians, and Indians more recently. In this work, we sought to investigate the molecular basis of variant D expression in the Thai population, which remains unknown. Materials and Methods: Blood samples from 450 Thai donors showing the variant D phenotype were collected. The RHD gene was analyzed by quantitative multiplex polymerase chain reaction of short fluorescent fragments and/or Sanger sequencing. Results: The most frequent alleles in 200 D-negative and 121 DEL samples were the whole RHD gene deletion and the Asian DEL alleles, respectively. In 129 weak/partial D samples, 36 variant alleles were identified, including eight novel alleles. RHD∗06.03, which is common in variant D samples from South China, is the most prevalent variant allele, followed by the recently reported Indian RHD∗01W.150 allele. Discussion: For the first time, a comprehensive overview of the nature and distribution of variant RHD alleles in Thailand is reported. It is a milestone to pave the way towards improvement of the current screening strategy to identify DEL donors accurately. The next step will be the design and implementation of a simple molecular test for screening the most frequent alleles, specifically in this population.
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    Computational identification of miRNAs that modulate the differentiation of mesenchymal stem cells to osteoblasts
    (2016-01-01) Kanokwan Seenprachawong; Pornlada Nuchnoi; Chanin Nantasenamat; Virapong Prachayasittikul; Aungkura Supokawej; Mahidol University
    © 2016 Seenprachawong et al. MicroRNAs (miRNAs) are small endogenous noncoding RNAs that play an instru- mental role in post-transcriptional modulation of gene expression. Genes related to osteogenesis (i.e., RUNX2, COL1A1 and OSX) is important in controlling the differentiation of mesenchymal stem cells (MSCs) to bone tissues. The regulated expression level of miRNAs is critically important for the differentiation of MSCs to preosteoblasts. The understanding of miRNA regulation in osteogenesis could be applied for future applications in bone defects. Therefore, this study aims to shed light on the mechanistic pathway underlying osteogenesis by predicting miRNAs that may modulate this pathway. This study investigates RUNX2, which is a major transcription factor for osteogenesis that drives MSCs into preosteoblasts. Three different prediction tools were employed for identifying miRNAs related to osteogenesis using the 3'UTR of RUNX2 as the target gene. Of the 1,023 miRNAs, 70 miRNAs were found by at least two of the tools. Candidate miRNAs were then selected based on their free energy values, followed by assessing the probability of target accessibility. The results showed that miRNAs 23b, 23a, 30b, 143, 203, 217, and 221 could regulate the RUNX2 gene during the differentiation of MSCs to preosteoblasts.
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    Computational identification of miRNAs that modulate the differentiation of mesenchymal stem cells to osteoblasts
    (2016-04) Kanokwan Seenprachawong; Pornlada Nuchnoi; Chanin Nantasenamat; Aungkura Supokawej; Mahidol University. Faculty of Medical Technology. Center of Data Mining and Biomedical Informatics; Mahidol University. Faculty of Medical Technology. Department of Clinical Microscopy
    MicroRNAs (miRNAs) are small endogenous noncoding RNAs that play an instrumental role in post-transcriptional modulation of gene expression. Genes related to osteogenesis (i.e. RUNX2, COL1A1 and OSX) is important in controlling the differentiation of mesenchymal stem cells (MSCs) to bone tissues. The regulated expression level of miRNAs is critically important for the differentiation of MSCs to preosteoblasts. The understanding of miRNA regulation in osteogenesis could be applied for future applications in bone defects. Therefore, this study aims to shed light on the mechanistic pathway underlying osteogenesis by predicting miRNAs that may modulate this pathway. This study investigates RUNX2, which is a major transcription factor for osteogenesis that drives MSCs into preosteoblasts. Three different prediction tools were employed for identifying miRNAs related to osteogenesis using the 3’UTR of RUNX2 as the target gene. Of the 1,023 miRNAs, 70 miRNAs were found by at least two of the tools. Candidate miRNAs were then selected based on their free energy values, followed by assessing the probability of target accessibility. The results showed that miRNAs 23b, 23a, 30b, 143, 203, 217, and 221 could regulate the RUNX2 gene during the differentiation of MSCs to preosteoblasts.
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    Enumeration of the absolute CD4 T-lymphocyte count by cell-bead assay
    (2010-01-01) Duangdao Nantakomol; Pornlada Nuchnoi; Egarit Noulsri; Surada Lerdwana; Sririma Krisin; Supantitra Chanprasert; Kovit Pattanapanyasat; Chulalongkorn University; Mahidol University
    Background: We have previously developed an alternative approach for undertaking absolute cell counting based upon flow-rate calibration using cell bead (FCB), in which cell bead (CB) can be used as a flow-rate calibration material for generating the absolute microparticle counts. Here, we extended our work of counting CD4+ T-lymphocytes in HIV-infected blood samples with the FCB method. Methods: CD4+ T-lymphocyte counts in EDTA blood samples from 30 healthy subjects and 80 HIV-1-infected patients were determined using TriTEST reagent. The absolute CD4+ T-lymphocytes were measured by FCB, and the results were compared with the absolute counting by commercial latex bead (CLB) or with flow rate-based calibration method (FR). Statistical correlation and agreement were analyzed using linear regression and Bland-Altman analysis. Results: There was no significant difference in the absolute number of CD4+ T-lymphocyte counts enumerated by FCB when compared with those two reference methods (CLB and FR). The absolute CD4+ T-lymphocyte counts obtained from FCB method was highly correlated with those obtained from CLB [r2= 0.99, y = 1.04x - 12.37, P < 0.001, and mean bias 11.96 cell/μl, limit of agreement (LOA) -57.82 - 81.74 cell/μl], FR method (r2 = 0.98; y = 0.97x - 3.13, P < 0.001, and mean bias -24.15 cell/μl, LOA -114.44 - 66.13 cell/μl). Conclusions: The use of FCB is comparable with the use of CLB and FR. This approach showed the effective in reducing cost for generating the absolute CD4+ T-lymphocyte counts. Such an approach should facilitate and ensure the success of the ongoing antiretroviral therapy program in resource-limited countries. © 2010 Clinical Cytometry Society.
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    FTO polymorphisms in oceanic populations
    (2007-12-01) Jun Ohashi; Izumi Naka; Ryosuke Kimura; Kazumi Natsuhara; Taro Yamauchi; Takuro Furusawa; Minato Nakazawa; Yuji Ataka; Jintana Patarapotikul; Pornlada Nuchnoi; Katsushi Tokunaga; Takafumi Ishida; Tsukasa Inaoka; Yasuhiro Matsumura; Ryutaro Ohtsuka; University of Tokyo; Tokai University; Fukuoka Prefectural University; Hokkaido University; Gunma University; Kwansei Gakuin University; Mahidol University; Saga University; National Institute of Health and Nutrition Tokyo; National Institute for Environmental Studies of Japan
    It has been suggested that Neel's "thrifty genotype" model may account for high body weights in some Oceanic populations, which presumably arose in modern times. In European populations, common variants (rs1421085-C, rs17817449-G, and rs9939609-A) in the fat mass and obesity (FTO associated) were recently found to be associated with body mass index (BMI) or obesity. In this study, we investigated the population frequencies of these variants in six Oceanic populations (Melanesians, Micronesians, and Polynesians) and tested for an association with BMI. Unlike European populations, the Oceanic populations displayed no significant association between the FTO polymorphisms and BMI. These variants were in strong linkage disequilibrium. The population frequencies ranged between 4.2 and 30.3% in the six Oceanic populations, and were similar to those in southeast and east Asian populations. Our study of the FTO polymorphisms has generated no evidence to support the thrifty genotype hypothesis for Oceanic populations. © 2007 The Japan Society of Human Genetics and Springer.
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    A functional single-nucleotide polymorphism in the CR1 promoter region contributes to protection against cerebral malaria
    (2008-12-15) Phairote Teeranaipong; Jun Ohashi; Jintana Patarapotikul; Ryosuke Kimura; Pornlada Nuchnoi; Hathairad Hananantachai; Izumi Naka; Chaturong Putaporntip; Somchai Jongwutiwes; Katsushi Tokunaga; University of Tokyo; Tokai University School of Medicine; Mahidol University; Chulalongkorn University; Naresuan University; University of Tsukuba
    Background. Although the level of erythrocyte complement receptor type 1 (E-CR1) expression in patients with malaria has been extensively studied, whether the level of expression of E-CR1 is associated with severe malaria remains controversial. The present study examined a possible association of polymorphisms in the CR1 gene with the severity of malaria, and it evaluated the influence of the associated polymorphism on expression of E-CR1. Methods. Seventeen single-nucleotide polymorphisms in CR1 were genotyped in 477 Thai patients who had Plasmodium falciparum malaria (203 had mild malaria, 165 had noncerebral severe malaria, and 109 had cerebral malaria). The E-CR1 expression level was measured by flow cytometry in 24 healthy Thai subjects. Results. The T allele of the reference single-nucleotide polymorphism rs9429942 in the CR1 promoter region was strongly associated with protection against cerebral malaria (2.2% of patients with mild malaria vs. 7.8% of patients with cerebral malaria; P = .0009; Bonferroni-adjusted Pc= .0306). The E-CR1 expression level was significantly higher in individuals with the TT genotype of rs9429942 than in individuals with the TC genotype of rs9429942 (P = .0282). Conclusions. We identified a CR1 promoter allele, associated with higher E-CR1 expression, that conferred protection against cerebral malaria. Previous studies have shown that the rate of clearance of immune complexes (ICs) from the circulation is related to the E-CR1 level. These results lead to the hypothesis that the clearance of ICs regulated by E-CR1 therefore plays a crucial role in the pathogenesis of cerebral malaria. © 2008 by the Infectious Diseases Society of America. All rights reserved.
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    Genetic association study of interferon lambda 3, CD27, and human leukocyte antigen-DPB1 with dengue severity in Thailand
    (2020-12-01) Unchana Arayasongsak; Izumi Naka; Jun Ohashi; Jintana Patarapotikul; Pornlada Nuchnoi; Thareerat Kalambaheti; Areerat Sa-Ngasang; Sumalee Chanama; Suwanna Chaorattanakawee; The University of Tokyo; Mahidol University; National Institutes of Health (NIH)
    © 2020, The Author(s). Background: Dengue patients develop different disease severity ranging from mild (dengue fever [DF]) to severe forms (dengue hemorrhagic fever [DHF] and the fatal dengue shock syndrome [DSS]). Host genetics are considered to be one factor responsible for the severity of dengue outcomes. To identify genes associated with dengue severity that have not been studied yet, we performed genetic association analyses of interferon lambda 3 (IFNL3), CD27, and human leukocyte antigen-DPB1 (HLA-DPB1) genes in Thai dengue patients. Methods: A case–control association study was performed in 877 children (age ≤ 15 years) with dengue infection (DF, n = 386; DHF, n = 416; DSS, n = 75). A candidate single nucleotide polymorphism of each of IFNL3, CD27, and HLA-DPB1 was selected to be analyzed. Genotyping was performed by TaqMan real-time PCR assay, and the association with dengue severity was examined. Results: The rs9277534 variant of HLA-DPB1 was weakly associated with DHF. The genotype GG and G allele conferred protection against DHF (p = 0.04, odds ratio 0.74 for GG genotype, p = 0.03, odds ratio 0.79 for G allele). The association became borderline significant after adjusting for confounders (p = 0.05, odds ratio 0.82). No association was detected for IFNL3 or CD27. Conclusions: The present study demonstrated the weak association of the rs9277534 variant of HLA-DPB1 with protection against DHF. This variant is in the 3′ untranslated region and affects HLA-DPB1 surface protein expression. Our finding suggests that HLA-DPB1 may be involved in DHF pathogenesis.
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    Identification of a haplotype block in the 5q31 cytokine gene cluster associated with the susceptibility to severe malaria
    (BioMed Central Ltd., 2009) Izumi Naka; Nao Nishida; Jintana Patarapotikul; Pornlada Nuchnoi; Katsushi Tokunaga; Hathairad Hananantachai; Naoyuki Tsuchiya; Jun Ohashi
    Background: It has been previously demonstrated that a single nucleotide polymorphism (SNP) in the IL13 promoter region, IL13 -1055T>C (rs1800925), was associated with susceptibility to severe malaria in Thais. In the present study, fine association mapping for a cytokine gene cluster including IL4, IL5, and IL13 on chromosome 5q31 was conducted using the same malaria subjects to refine the region containing a primary variant or a haplotype susceptible to severe malaria. Methods: A total of 82 SNPs spanning 522 kb of the 5q31 region were analysed in 368 patients with Plasmodium falciparum malaria (203 mild malaria and 165 severe malaria patients). Results: Only rs1881457 located in the promoter region of IL13, which is in linkage disequilibrium with rs1800925 (r2 = 0.73), showed a significant association with severe malaria after adjusting for multiple testing (P = 0.046 by permutation test). This SNP was in a haplotype block spanning 97 kb (from rs2069812 to rs2240032). The detected haplotype block contained the RAD50 gene and the promoter of IL13, but not the other genes. Conclusion: A haplotype block in which a primary polymorphism associated with severe malaria is likely to be encoded was identified in Thai malaria patients
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    Identification of a haplotype block in the 5q31 cytokine gene cluster associated with the susceptibility to severe malaria
    (2009-11-30) Izumi Naka; Nao Nishida; Jintana Patarapotikul; Pornlada Nuchnoi; Katsushi Tokunaga; Hathairad Hananantachai; Naoyuki Tsuchiya; Jun Ohashi; University of Tsukuba; University of Tokyo; Mahidol University
    Background. It has been previously demonstrated that a single nucleotide polymorphism (SNP) in the IL13 promoter region, IL13 -1055T>C (rs1800925), was associated with susceptibility to severe malaria in Thais. In the present study, fine association mapping for a cytokine gene cluster including IL4, IL5, and IL13 on chromosome 5q31 was conducted using the same malaria subjects to refine the region containing a primary variant or a haplotype susceptible to severe malaria. Methods. A total of 82 SNPs spanning 522 kb of the 5q31 region were analysed in 368 patients with Plasmodium falciparum malaria (203 mild malaria and 165 severe malaria patients). Results. Only rs1881457 located in the promoter region of IL13, which is in linkage disequilibrium with rs1800925 (r2 = 0.73), showed a significant association with severe malaria after adjusting for multiple testing (P = 0.046 by permutation test). This SNP was in a haplotype block spanning 97 kb (from rs2069812 to rs2240032). The detected haplotype block contained the RAD50 gene and the promoter of IL13, but not the other genes. Conclusion. A haplotype block in which a primary polymorphism associated with severe malaria is likely to be encoded was identified in Thai malaria patients.
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    The Identification of Functional Non-Synonymous SNP in Human ATP Binding Cassette (ABC), Subfamily Member 7 Gene: Application of Bioinformatics Tools in Biomedicine.
    (Mahidol University, 2011) Pornlada Nuchnoi; Duangdao Nantakomol; Vasunun Chumchua; Chotiros Plabplueng; Chartchalerm Isarankura-Na-Ayudhya; Virapong Prachayasittikul
    The prediction of functional single nucleotide polymorphism (SNP) is promising in modern genetics analysis. Computational biology technology has facilitated an increase in the successful rate of genetic association study and reduced the cost of genotyping. In the present study, we applied various bioinformatics tools for the selection of high potentially functional nsSNP and determined the linkage disequilibrium (LD) structure of ATP-binding cassette transporter member 7 (ABCA7) genes in HapMap populations. Two functional polymorphisms (rs3752233 and rs3752246) were identified on the basis of less protein stability, a low likelihood of mutability, a changing of protein structure and function. Interestingly, a completed LD between rs3752233 (R463H) and rs4147918 (Q1686R) was detected in Utah residents with ancestry from northern and western Europe (CEU) populations. In addition, the difference of the LD pattern between the populations observed highlighted the essential role of the construction of an LD map for designing and interpreting genetic association study. Studies herein convey the empirical guidelines for conduction of ABCA7 genetic association study via bioinformatics and computational application.
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    The identification of functional non-synonymous SNP in human ATP-binding cassette (ABC), subfamily member 7 gene: Application of bioinformatics tools in biomedicine
    (2011-03-01) Pornlada Nuchnoi; Duangdao Nantakomol; Vasunun Chumchua; Chotiros Plabplueng; Chartchalerm Isarankura-Na-Ayudhya; Virapong Prachayasittikul; Mahidol University; Chulalongkorn University
    The prediction of functional single nucleotide polymorphism (SNP) is promising in modern genetics analysis. Computational biology technology has facilitated an increase in the successful rate of genetic association study and reduced the cost of genotyping. In the present study, we applied various bioinformatics tools for the selection of high potentially functional nsSNP and determined the linkage disequilibrium (LD) structure of ATP-binding cassette transporter member 7 (ABCA7) genes in HapMap populations. Two functional polymorphisms (rs3752233 and rs3752246) were identified on the basis of less protein stability, a low likelihood of mutability, a changing of protein structure and function. Interestingly, a completed LD between rs3752233 (R463H) and rs4147918 (Q1686R) was detected in Utah residents with ancestry from northern and western Europe (CEU) populations. In addition, the difference of the LD pattern between the populations observed highlighted the essential role of the construction of an LD map for designing and interpreting genetic association study. Studies herein convey the empirical guidelines for conduction of ABCA7 genetic association study via bioinformatics and computational application. © 2011 Nuchnoi P, et al.
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    In Silico approach for differentiation of hypochromic microcytic anemia and dyslipidemia
    (Mahidol University. Mahidol University Library and Knowledge Center, 2023) Kandhro, Abdul Hafeez, 1959-; Pornlada Nuchnoi; Watshara Shoombuatong; Sureerut Porntadavity; Virapong Prachayasittikul; Chotiros Plabplueng
    Bioinformatics is a powerful research tools for facilitating disease diagnosis, treatment and prevention. In this study, the researcher systematically applied bioinformatics approach for solving common diseases/conditions in Asia. Unfortunately, the lack of special tests has hampered the differential and definitive diagnosis in poor resource setting areas. Several discrimination formulas have been used as simply screening tool to discriminate thalassemia traits from IDA. Therefore, twelve common existing discrimination formulas were applied in this study using Pakistan population as model. Six formulas (MI, EF, G&K, RDWI, R, and HHI) demonstrated the most reliability. Random Forest approach was used to improve cutoff values of the remaining six formulas. Furthermore, the researcher generated two new discrimination formulas with proposed cutoff values. The new formulas demonstrated high accuracies and the Youden's index. This indicated that the new proposed formulas and the six existing formulas with adjusted cutoff values discriminate IDA and thalassemia trait cases. We applied Text-mining approach was applied for constructing molecular network of miRNA related dyslipidemia. In order to comprehensively visualize the interaction of miRNAs and the role the related genes play in dyslipidemia, the researcher retrieved public databases information for microRNA and dyslipidemia associations, a total 227 associations including 148 microRNAs for constructing and visualizing interaction network by Cytoscape. The top 20 significant microRNAs used to derive predicted and validated gene targets by using CyTargetLinker. Predicted gene targets showed significant biological processes for cholesterol, lipid and fatty acids under the gene ontology analysis by BiNGO on Cytoscape. This study uncovered the complex network of miRNA in biological and pathological mechanism related to dyslipidemia. Finally, the impact of bioinformatics approach for laboratory application was demonstrated.
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    Increase membrane vesiculation in essential hypertension
    (2012-01-01) Duangdao Nantakomol; Mallika Imwong; Sumana Mas-Oodi; Chotiros D. Plabplueng; Chartchalerm Isarankura-Na-Ayudhya; Virapong Prachayasittikul; Pornlada Nuchnoi; Chulalongkorn University; Mahidol University
    Background: A hypertensive condition is known to be an important risk factor for arterial disease and thrombotic events. The detailed understanding of the pathophysiology in thrombotic events is crucial for the development of both preventive measures and the treatment during the early stage. Microparticles are submicron cell membrane vesicle shed from the cell surface in response to cell injury or apoptosis, and they are an essential element in the process leading to the pathogenesis of thrombosis and hemostasis dysfunction in patients. Activation of blood cells can result in the formation of microparticles, which carry a negatively charged, phosphatidylserine (PS), with a diameter of < 1.0 micron. The biological and clinical functions of microparticles have been highlighted in coronary artery disease and heart failure. Objective: To elucidate the functional role of microparticles in essential hypertension. Methods: We quantitated the total number of circulating PS+ microparticles and studied the role of PS+ microparticles to see whether they can shorten the plasma recalcification time in patients with essential hypertension. Results: The PS+ microparticles were detectable at a low level in healthy blood and significantly increased in the patients with essential hypertension. With regard to PS+ microparticles affecting prothrombotic state in hypertension, we enriched microparticles and determined their procoagulant activity with a plasma recalcification time. The clotting time was significantly reduced after the addition of enriched microparticles to plasma poor microparticles (PPMP). A significant negative correlation was detected between numbers of enriched-PS+ microparticles and plasma-clotting time (r=-0.43, P=0.01). Conclusion: Taken together, high levels of PS+ microparticles are present in the circulating blood of essential hypertension and may contribute to the generation and perpetuation of a thrombotic state.
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    Interferon lambda 1 is associated with dengue severity in Thailand
    (2020-04-01) Unchana Arayasongsak; Izumi Naka; Jun Ohashi; Jintana Patarapotikul; Pornlada Nuchnoi; Thareerat Kalambaheti; Areerat Sa-Ngasang; Sumalee Chanama; Suwanna Chaorattanakawee; University of Tokyo; Mahidol University; National Institutes of Health, Bethesda
    © 2020 The Authors Objectives: Patients with dengue exhibit a range of symptoms from an acute febrile illness (dengue fever, DF), to dengue hemorrhagic fever (DHF), and to the most severe outcome, dengue shock syndrome (DSS). This study was performed to determine the host genetic factors responsible for dengue severity. Two single nucleotide polymorphisms (SNPs) of the interferon lambda 1 (IFNL1) gene (rs30461 and rs7247086) were analyzed for their association with dengue severity in a Thai population. Methods: This was a case–control association study involving 877 patients under the age of 15 years (DF, n = 386; DHF, n = 416; DSS, n = 75). Genotyping was performed by TaqMan real-time PCR assay. Results: It was found that the rs7247086 variant of IFNL1 was associated with DHF, but not DSS. Genotypes CT and TT and the T allele were protective against DHF (p = 0.03, odds ratio 0.62 for CT, odds ratio 0.13 for TT; and p = 0.01, odds ratio 0.54 for the T allele). The other SNP tested was not associated with DHF or DSS. Conclusions: The rs7247086 variant of IFNL1 (the T allele) was found to be protective against DHF, suggesting that IFNL1 may play a role in the pathogenesis of DHF.
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    Interferon-induced protein with tetratricopeptide repeats 1 (IFIT1) polymorphism as a genetic marker of cerebral malaria in Thai population
    (2018-06-01) Saw Wah; Hathairad Hananantachai; Jintana Patarapotikul; Jun Ohashi; Izumi Naka; Pornlada Nuchnoi; University of Tokyo; Mahidol University; University of Medical Technology
    © 2018 Medknow Publications. All rights reserved. Objective: To know whether the effect of interferon-induced protein with tetratricopeptide repeats (IFIT) 1 polymorphism influences the susceptibility of cerebral malaria outcome. Methods: Case-control association study was performed among 314 Thai patients (110 with cerebral malaria and 204 with uncomplicated malaria) infected with Plasmodium falciparum. Genotyping for five tag-single nucleotide polymorphisms of IFIT1 was performed by endpoint genotyping. Results: Genotype frequencies of all tag-SNPs (single nucleotide polymorphisms) showed no association with malaria outcome. However, C allele of rs11203109 was associated with the protection from cerebral malaria (OR=0.62, 95% CI=0.38-0.99, P=0.048). Two single nucleotide polymorphisms (rs5786868 and rs57941432) were in linkage disequilibrium with rs11203109. Conclusions: This suggests that our associated single nucleotide polymorphism (rs11203109) might be a genetic marker of cerebral malaria progression in the Thai population. http://www.apjtm.org/article.asp?issn=1995-7645;year=2018;volume=11;issue=6;spage=376;epage=380;aulast=Wah;type=2.