CORE--GENOTYPING

核心——基因分型

• 批准号: 6593396
• 负责人: David T. BURKE
• 金额: $ 31.28万
• 依托单位: UNIVERSITY OF MICHIGAN AT ANN ARBOR
• 依托单位国家: 美国
• 财政年份: 2002
• 资助国家: 美国
• 起止时间: 2002-06-01 至 2003-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6593396
• 关键词: aging; biomedical facility; female; genetic mapping; genetic markers; genetic polymorphism; genotype; laboratory mouse; molecular biology information system; molecular genetics; polymerase chain reaction; quantitative trait loci

The Genotyping Core will provide genetic information on the UM-HET3 female mice used for all aspects of the Program Project. The 600 Population 1 animals produced in Animal ore will be genotyped at 150 loci, with each locus able to distinguish the four grandparental alleles. For each animal the genotype scan will provide approximately 15 to 20 cM coverage across the genome. Genotyping will be performed on additional UM-HET3 females to screen for a small number of candidate lifespan-associated loci. Animals identified as having the desired combination of alleles at the loci will be retained as Population 2 (180 animals final total). The Populations will be examined for phenotypes in the individual Projects and assessed for genotype by-phenotype associations by Data Analysis Core. The Specific Aims: Aim 1. Establish a high-throughput genotyping service capable of handling approximately 30,000 PCR-based genotype assays per year. Aim 2. Prepare and quantify genomic DNA from all project animals. Aim 3. Identify, develop, and quality assess 150 polymorphic marker reactions. Additional marker reactions will be identified in candidate regions of the gnome in the final two years of the Project. Aim 4. Generate high-quality genotype data from 150 marker on 600 Population 1 animals. The final dataset will include approximately 90,000 genotypes with less than 3% missing data and less than 1% error. The data will be transferred to Data Animal Core for analysis. Aim 5. Generate high-quality genotype data at six polymorphic loci on approximately 1500 UM-HET3 candidate animals for Population 2. Genotypes will be determined at 8 weeks of age and 180 animals will be selected based on the genotypes. The loci used for the screen will bracket three quantitative trait loci (QTL) proposed as candidates for lifespan. For this screen, approximately 9000 genotype values will be obtained over two years, with percent error and missing data levels comparable to Population I. Aim 6. Develop a laboratory information management system (LIMS) for efficient genotype data handling, resource management, and cost control.

基因分型核心将提供用于该计划项目各方面的UM-HET3雌性小鼠的遗传信息。在Animal ore生产的600只第1种群动物将在150个位点上进行基因分型，每个位点能够区分四种祖父母等位基因。对于每只动物，基因型扫描将在整个基因组中提供大约15至20厘米的覆盖范围。将对其他UM-HET3雌性进行基因分型，以筛选少量候选寿命相关位点。被鉴定出在这些位点上具有所需等位基因组合的动物将保留为第2种群（最终总数为180只动物）。将在单个项目中检查种群的表型，并通过数据分析核心评估基因型与表型的关联。具体目标：目标1。建立高通量基因分型服务，每年能够处理约30,000次基于pcr的基因分型分析。目标2。准备和量化所有项目动物的基因组DNA。目标3。鉴定，开发和质量评估150多态标记反应。在项目的最后两年，将在侏儒的候选区域确定其他标记反应。目标4。从600只种群1动物的150个标记中获得高质量的基因型数据。最终的数据集将包括大约90,000个基因型，数据缺失率小于3%，误差小于1%。数据将被转移到数据动物核心进行分析。目标5。在大约1500只种群2的UM-HET3候选动物的6个多态位点上生成高质量的基因型数据。将在8周龄时确定基因型，并根据基因型选择180只动物。用于筛选的位点将包含三个作为寿命候选的数量性状位点（QTL）。对于这一筛选，将在两年内获得大约9000个基因型值，其误差率和缺失数据水平与人口i相当。开发一个实验室信息管理系统（LIMS），用于有效的基因型数据处理、资源管理和成本控制。