Genetic Analysis Workshop 13: Simulated longitudinal data on families for a system of oligogenic traits
Genetic Analysis Workshop 13: Simulated longitudinal data on families for a system of oligogenic traits
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DOI：
10.1186/1471-2156-4-s1-s3
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发表时间：
2003-12-31
期刊：
影响因子：
2.9
通讯作者：
Thomas, DC
中科院分区：
文献类型：
--
作者：
Daw, EW;Morrison, J;Thomas, DC
遗传分析研讨会13模拟数据旨在模拟形成问题1的真实的心脏病研究数据的主要特征，但在已知的遗传模型下并具有100个重复，以便允许评价各种方法的统计特性。所用的系谱是330个真实的系谱结构（包括4692个个体），为了保密，进行了一些微小的修改。通过在22条常染色体上滴加基因模拟了50个性状基因和399个微卫星标记。假设随机确定的家庭，一个系统的8个纵向数量性状（设计成类似于那些在真实的数据）产生了广泛的遗传力，包括一些多效性和交互作用。基因可以影响基线水平或表型的变化率。高血压的诊断和治疗与治疗的可用性，依从性和疗效取决于日历年模拟。吸烟和饮酒的非遗传性状作为其他性状的协变量。根据年龄、性别、吸烟、胆固醇和收缩压模拟死亡风险率，在模拟完整数据后，基于拟合真实的数据的logistic模型生成缺失数据指标，包括受试者及其配偶、父母、兄弟姐妹和子女的既往缺失值历史，以及婚姻状况、独生子女指标，当前值在某些模拟性状，和数据收集模式的队列，其中每个主题被确定。
The Genetic Analysis Workshop 13 simulated data aimed to mimic the major features of the real Framingham Heart Study data that formed Problem 1, but under a known inheritance model and with 100 replicates, so as to allow evaluation of the statistical properties of various methods. The pedigrees used were the 330 real pedigree structures ( comprising 4692 individuals) with some minor changes to protect confidentiality. Fifty trait genes and 399 microsatellite markers were simulated by gene dropping on 22 autosomal chromosomes. Assuming random ascertainment of families, a system of eight longitudinal quantitative traits ( designed to be similar to those in the real data) was generated with a wide range of heritabilities, including some pleiotropic and interactive effects. Genes could affect either the baseline level or the rate of change of the phenotype. Hypertension diagnosis and treatment were simulated with treatment availability, compliance, and efficacy depending on calendar year. Nongenetic traits of smoking and alcohol were generated as covariates for other traits. Death was simulated as a hazard rate depending upon age, sex, smoking, cholesterol, and systolic blood pressure.After the complete data were simulated, missing data indicators were generated based on logistic models fitted to the real data, involving the subject's history of previous missing values, together with that of their spouses, parents, siblings, and offspring, as well as marital status, only-child indicators, current value at certain simulated traits, and the data collection pattern on the cohort into which each subject was ascertained.