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Comprehensive studies of novel SNPs affecting warfarin dose in African Americans

影响非裔美国人华法林剂量的新型 SNP 的综合研究

基本信息

批准号：
8299048
负责人：
Minoli A Perera
金额：
$ 19.54万
依托单位：
UNIVERSITY OF CHICAGO
依托单位国家：
美国
项目类别：
财政年份：
2011
资助国家：
美国
起止时间：
2011-08-01 至 2014-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8299048
关键词：
Adverse effects Affect African American Age Algorithms Anticoagulation Asians Automobile Driving Binding Sites Bioinformatics Biological Assay Biological Markers CYP2C9 gene Candidate Disease Gene Caucasians Caucasoid Race Chicago Clinical Code DNA Resequencing Databases Dose Drug Delivery Systems Drug Kinetics Enzymes Gene Expression Regulation Gene Mutation Genes Genetic Polymorphism Genetic Transcription Genetic Variation Genome Genotype Goals Haplotypes Human Illinois In Vitro Individual Knowledge Lead Linkage Disequilibrium Liver Maintenance Methods Mutation Nature Oxidoreductase Pharmaceutical Preparations Pharmacodynamics Pharmacogenetics Plasma Population Population Study Proteins Prothrombin Proxy Quantitative Trait Loci Regulation Research Role Sampling Series Solid Surrogate Markers Targeted Research Testing Transcript Transcriptional Regulation Translations Universities Validation Variant Vitamin K Warfarin Warfarin Sodium Washington Weight base clinical effect clinical practice clinically relevant cohort comparative genomics drug metabolism evidence base functional disability genome-wide in vitro Assay in vivo interest non-genetic novel protein function tool vitamin K epoxide reductase

项目摘要

DESCRIPTION (provided by applicant): Warfarin (Coumadin (R)) has been a long-standing target of research because it is both difficult to determine the correct dose and has serious adverse effects. Currently, algorithms using polymorphisms in the CYP2C9 and VKORC1 genes have been developed to predict the correct maintenance dose of warfarin in Caucasians and Asians. However these algorithms, which include known non-genetic variables such as age, weight and concomitant medications, are much less predictive in African Americans. Discovery of which SNPs affect dose in African Americans and the mechanism underlying their effect remain a gap in the current knowledge. We hypothesize that these studies will identify clinically relevant SNPs that affect warfarin dose in African Americans. The aims of this proposal are to provide validated evidence for novel genetic variation that affects warfarin dose in African Americans, to investigate the effect these SNPs have on the gene regulation, and to show the effect of these SNPs on both the pharmacokinetics of warfarin and its drug target Vitamin K epoxide reductase (VKOR). In pursuit of these goals, we have determined and genotyped the relevant haplotype tagging SNPs (htSNPs) in CYP2C9 and VKORC1 in African Americans, using comparative genomics and putative transcriptional binding sites prediction. By looking at htSNPs we can genotype just one SNP in the haplotype and capture the variation in linkage disequilibrium (LD) with that SNP. Tests for association in the discovery cohort have revealed interesting novel variation in both genes. However, validation of these findings is needed. To further evaluate regulation, we used a genome-wide bioinformatics tool (SCAN) to identify expression Quantitative Trait Loci (eQTLs), a method that has never been used to identify novel SNPs associated with warfarin dosing. To this end, we plan on genotyping the most highly associated SNPs in two independent African American anticoagulation cohorts. Those that replicate will then be assayed for function in a series of in vitro assays. We will then investigate the direct clinical effect of these SNPs on drug metabolism and the target protein by conducting a pharmacokinetic study evaluating the effect of CYP2C9 SNPs on S- to R-warfarin plasma concentration ratio and a pharmacodynamic study evaluating the effect of VKORC1 SNPs on a surrogate marker of VKOR protein function, Prothrombin induced by vitamin K absence or antagonism II (PIVKA-II). This proposed research is both timely and necessary to fill gaps in the current knowledge and to affect real translation of pharmacogenetics into clinical practice.

描述（由申请人提供）：华法林（香豆素(R)）一直是研究的长期目标，因为它既难以确定正确的剂量，又有严重的不良反应。目前，使用CYP2C9和VKORC1基因多态性的算法已经被开发出来，用于预测白种人和亚洲人华法林的正确维持剂量。然而，这些算法包括已知的非遗传变量，如年龄、体重和伴随药物，对非裔美国人的预测能力要低得多。发现哪些snp影响非裔美国人的剂量及其影响的机制仍然是目前知识的空白。我们假设这些研究将确定影响非裔美国人华法林剂量的临床相关snp。本研究旨在为影响非裔美国人华法林剂量的新遗传变异提供有效证据，研究这些snp对基因调控的影响，并显示这些snp对华法林及其药物靶点维生素K环氧化物还原酶（VKOR）的药代动力学的影响。为了实现这些目标，我们利用比较基因组学和推测的转录结合位点预测，确定了非裔美国人CYP2C9和VKORC1中相关的单倍型标记snp （htsnp）并进行了基因分型。通过观察htSNPs，我们可以对单倍型中的一个SNP进行基因分型，并捕获该SNP的连锁不平衡（LD）变化。在发现队列中的关联测试揭示了两个基因中有趣的新变异。然而，需要对这些发现进行验证。为了进一步评估调控，我们使用全基因组生物信息学工具（SCAN）来鉴定表达数量性状位点（eQTLs），这种方法从未用于鉴定与华法林剂量相关的新snp。为此，我们计划在两个独立的非裔美国抗凝队列中对高度相关的snp进行基因分型。那些复制的细胞将在一系列体外实验中进行功能分析。然后，我们将通过药代动力学研究评估CYP2C9 snp对S-与r -华法林血浆浓度比的影响，以及药效学研究评估VKORC1 snp对VKOR蛋白功能的替代标记物——维生素K缺乏或拮抗II （PIVKA-II）诱导的凝血酶原的影响，来研究这些snp对药物代谢和靶蛋白的直接临床影响。这项提出的研究是及时和必要的，以填补目前的知识空白，并影响药物遗传学真正转化为临床实践。