Population Genetics Models for the Statistics of Dna Samples under Different Demographic Scenarios—maximum Likelihood versus Approximate Methods
نویسندگان
چکیده
The interaction of demography and genetics is of basic importance for the genetic structure of human as well as animal and plant populations. The impact is visible particularly in genetic epidemiology, as well as in physical anthropology and molecular ecology. Genetic epidemiology is a branch of science which is concerned with the distribution and evolution of genetic diseases in human populations. Many of these populations went through demographic events such as bottlenecks, splits and admixtures (Weiss, 1993). The entire modern human population resulted from a major expansion, which started 50– 100 thousand years ago (Relethford, 2001). These demographic events resulted in an uneven distribution of genetic disorders in different human populations. Typical examples are the occurrence of the mutation causing the Tay–Sachs disease in Ashkenazi Jews (Weiss, 1993, pp. 183–184), and the occurrence of diabetes in Amerindians (Weiss, 1993, Table 10.4). In addition, under suitable assumptions, all individuals with a given disease mutation can be considered a growing subpopulation originating from the individual in whom the original disease mutation occurred. This observation helps in developing methods mapping disease genes (Kaplan et al., 1995; Pankratz, 1998).
منابع مشابه
Approximate maximum likelihood estimation for population genetic inference.
In many population genetic problems, parameter estimation is obstructed by an intractable likelihood function. Therefore, approximate estimation methods have been developed, and with growing computational power, sampling-based methods became popular. However, these methods such as Approximate Bayesian Computation (ABC) can be inefficient in high-dimensional problems. This led to the development...
متن کاملApproximate bayesian computation without summary statistics: the case of admixture.
In recent years approximate Bayesian computation (ABC) methods have become popular in population genetics as an alternative to full-likelihood methods to make inferences under complex demographic models. Most ABC methods rely on the choice of a set of summary statistics to extract information from the data. In this article we tested the use of the full allelic distribution directly in an ABC fr...
متن کاملCoalescent experiments II: Markov bases of classical population genetic statistics
Evaluating the likelihood function of parameters in complex population genetic models from extant deoxyribonucleic acid (DNA) sequences is computationally prohibitive. In such cases, one may approximately infer the parameters from various summary statistics of the data. Such method are known as approximate likelihood/Bayesian computations. We employ computational commutative algebraic methods t...
متن کاملInferring Population Size History from Large Samples of Genome-Wide Molecular Data - An Approximate Bayesian Computation Approach.
Inferring the ancestral dynamics of effective population size is a long-standing question in population genetics, which can now be tackled much more accurately thanks to the massive genomic data available in many species. Several promising methods that take advantage of whole-genome sequences have been recently developed in this context. However, they can only be applied to rather small samples...
متن کاملCharacterization of demographic expansions from pairwise comparisons of linked microsatellite haplotypes.
This work extends the methods of demographic inference based on the distribution of pairwise genetic differences between individuals (mismatch distribution) to the case of linked microsatellite data. Population genetics theory describes the distribution of mutations among a sample of genes under different demographic scenarios. However, the actual number of mutations can rarely be deduced from ...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
عنوان ژورنال:
دوره شماره
صفحات -
تاریخ انتشار 2003