Phylogeny and Genomic Inference for Quantitative Traits

数量性状的系统发育和基因组推断

• 批准号: 7198115
• 负责人: Joseph Felsenstein
• 金额: $ 22.23万
• 依托单位: UNIVERSITY OF WASHINGTON
• 依托单位国家: 美国
• 财政年份: 2005
• 资助国家: 美国
• 起止时间: 2005-04-01 至 2009-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7198115
• 关键词: Affect; Biology; Complex; Computer Simulation; Computing Methodologies; Data; Data Analyses; Environment; Event; Evolution; Gene Frequency; Genes; Genetic; Genetic Drift; Genome; Genomics; Individual; Internet; Java; Location; Maps; Markov Chains; Measurable; Measurement; Methods; Modeling; Monte Carlo Method; Motion; Multivariate Analysis; Mutation; Natural Selections; Numbers; Pattern; Phylogenetic Analysis; Phylogeny; Population; Population Biology; Process; Quantitative Genetics; Rate; Sampling; Single Nucleotide Polymorphism; Site; Statistical Methods; Structure; Testing; Variant; Writing; computer program; migration; neglect; programs; trait

DESCRIPTION (provided by applicant): Phylogeny and Genomic Inference for Quantitative Traits It is proposed to develop statistical methods for analyzing data on phenotypic traits within populations, between populations, and between species, in an integrated way. Computer programs will be written and distributed to allow us to compare inferences at these levels and test whether divergence of characters among species shows different patterns of divergence when compared to the same characters observed between populations. Discrete 0/1 traits will be handled as well as quantitatively measurable traits. For the discrete traits, the threshold model of quantitative genetics will be used. Simple models of change of measurable environmental variables will be incorporated as well to allow testing of effects of these environments. These methods will be extended to also be able to handle neutral markers such as SNPs from genomic sequences. The pattern of variation within and between species of these SNPs creates opportunities to test for natural selection, by looking for combinations of characters that have evolved with a noticeably different pattern of covariation than the markers. In this way the testing framework will begin to unify population biology inferences with genomic methods, as genomic methods are increasingly applied to the biology of natural populations.

描述（由申请人提供）：数量性状的系统发育和基因组推断 建议开发统计方法，以综合方式分析种群内、种群间和物种间表型性状的数据。将编写和分发计算机程序，以便我们能够比较这些级别的推论，并测试物种之间的性状差异与种群之间观察到的相同性状相比是否表现出不同的差异模式。将处理离散的 0/1 特征以及可定量测量的特征。对于离散性状，将使用数量遗传学的阈值模型。还将纳入可测量环境变量变化的简单模型，以便测试这些环境的影响。这些方法将扩展到能够处理中性标记，例如来自基因组序列的 SNP。这些 SNP 物种内部和物种之间的变异模式为测试自然选择创造了机会，通过寻找与标记明显不同的共变模式进化的性状组合。通过这种方式，随着基因组方法越来越多地应用于自然群体生物学，测试框架将开始将群体生物学推论与基因组方法统一起来。