Exploring Population Genetic Models With Recombination Using Efficient Forward-Time Simulations

by: Badri Padhukasahasram, Paul Marjoram, Jeffrey D Wall, Carlos D Bustamante, Magnus Nordborg

Genetics, Vol. 178, No. 4. (1 April 2008), pp. 2417-2427.

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Abstract

We present an exact forward-in-time algorithm that can efficiently simulate the evolution of a finite population under the WrightFisher model. We used simulations based on this algorithm to verify the accuracy of the ancestral recombination graph approximation by comparing it to the exact WrightFisher scenario. We find that the recombination graph is generally a very good approximation for models with complete outcrossing, whereas, for models with self-fertilization, the approximation becomes slightly inexact for some combinations of selfing and recombination parameters. 10.1534/genetics.107.085332

@article{citeulike:2703201, abstract = {We present an exact forward-in-time algorithm that can efficiently simulate the evolution of a finite population under the WrightFisher model. We used simulations based on this algorithm to verify the accuracy of the ancestral recombination graph approximation by comparing it to the exact WrightFisher scenario. We find that the recombination graph is generally a very good approximation for models with complete outcrossing, whereas, for models with self-fertilization, the approximation becomes slightly inexact for some combinations of selfing and recombination parameters. 10.1534/genetics.107.085332}, author = {Padhukasahasram, Badri and Marjoram, Paul and Wall, Jeffrey D. and Bustamante, Carlos D. and Nordborg, Magnus }, citeulike-article-id = {2703201}, doi = {10.1534/genetics.107.085332}, journal = {Genetics}, keywords = {forward-simulations, gene-conversion, genetics, population, recombination}, month = {April}, number = {4}, pages = {2417--2427}, posted-at = {2008-04-29 22:20:46}, priority = {0}, title = {Exploring Population Genetic Models With Recombination Using Efficient Forward-Time Simulations}, url = {http://dx.doi.org/10.1534/genetics.107.085332}, volume = {178}, year = {2008} }

RIS record

TY - JOUR ID - citeulike:2703201 L3 - citeulike-article-id:2703201 TI - Exploring Population Genetic Models With Recombination Using Efficient Forward-Time Simulations JF - Genetics VL - 178 IS - 4 SP - 2417 EP - 2427 N2 - We present an exact forward-in-time algorithm that can efficiently simulate the evolution of a finite population under the WrightFisher model. We used simulations based on this algorithm to verify the accuracy of the ancestral recombination graph approximation by comparing it to the exact WrightFisher scenario. We find that the recombination graph is generally a very good approximation for models with complete outcrossing, whereas, for models with self-fertilization, the approximation becomes slightly inexact for some combinations of selfing and recombination parameters. 10.1534/genetics.107.085332 KW - forward-simulations KW - gene-conversion KW - genetics KW - population KW - recombination AU - Padhukasahasram, Badri AU - Marjoram, Paul AU - Wall, Jeffrey AU - Bustamante, Carlos AU - Nordborg, Magnus PY - 2008/04/01/ UR - http://dx.doi.org/10.1534/genetics.107.085332 ER -

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