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本文引用的文献

1
Deep resequencing reveals excess rare recent variants consistent with explosive population growth.深度重测序揭示了与人口爆炸式增长相一致的过量罕见近期变异。
Nat Commun. 2010 Nov 30;1:131. doi: 10.1038/ncomms1130.
2
A map of human genome variation from population-scale sequencing.人类基因组变异的图谱来自于基于人群的测序。
Nature. 2010 Oct 28;467(7319):1061-73. doi: 10.1038/nature09534.
3
Simultaneous inference of selection and population growth from patterns of variation in the human genome.从人类基因组变异模式中同时推断选择和种群增长。
Proc Natl Acad Sci U S A. 2005 May 31;102(22):7882-7. doi: 10.1073/pnas.0502300102. Epub 2005 May 19.
4
Maximum-likelihood estimation of demographic parameters using the frequency spectrum of unlinked single-nucleotide polymorphisms.利用非连锁单核苷酸多态性的频率谱对人口统计学参数进行最大似然估计。
Genetics. 2004 Nov;168(3):1699-712. doi: 10.1534/genetics.104.030171.
5
A high-resolution recombination map of the human genome.人类基因组的高分辨率重组图谱。
Nat Genet. 2002 Jul;31(3):241-7. doi: 10.1038/ng917. Epub 2002 Jun 10.
6
Generating samples under a Wright-Fisher neutral model of genetic variation.在遗传变异的赖特-费希尔中性模型下生成样本。
Bioinformatics. 2002 Feb;18(2):337-8. doi: 10.1093/bioinformatics/18.2.337.
7
Coalescents and genealogical structure under neutrality.中性条件下的溯祖过程与谱系结构
Annu Rev Genet. 1995;29:401-21. doi: 10.1146/annurev.ge.29.120195.002153.
8
The effect of change in population size on DNA polymorphism.种群大小变化对DNA多态性的影响。
Genetics. 1989 Nov;123(3):597-601. doi: 10.1093/genetics/123.3.597.

FTEC：一种用于模拟超指数增长的合并模拟器。

FTEC: a coalescent simulator for modeling faster than exponential growth.

机构信息

Department of Biostatistics and Center for Statistical Genetics and Department of Psychiatry, University of Michigan, Ann Arbor, MI 48109, USA.

出版信息

Bioinformatics. 2012 May 1;28(9):1282-3. doi: 10.1093/bioinformatics/bts135. Epub 2012 Mar 21.

DOI:10.1093/bioinformatics/bts135
PMID:22441586
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3338023/
Abstract

SUMMARY

Recent genetic studies as well as recorded history point to massive growth in human population sizes during the recent past. To model and understand this growth accurately we introduce FTEC, an easy-to-use coalescent simulation program capable of simulating haplotype samples drawn from a population that has undergone faster than exponential growth. Samples drawn from a population that has undergone faster than exponential growth show an excess of very rare variation and more rapid LD decay when compared with samples drawn from a population that has maintained a constant size over time.

AVAILABILITY

Source code for FTEC is freely available for download from the University of Michigan Center for Statistical Genetics Wiki at http://genome.sph.umich.edu/wiki/FTEC

摘要

摘要

最近的遗传学研究以及有记载的历史表明，人类人口在近代经历了大规模的增长。为了准确地对这种增长进行建模和理解，我们引入了 FTEC，这是一个易于使用的合并模拟程序，能够模拟经历了超指数增长的群体中的单倍型样本。与从随着时间的推移保持恒定大小的群体中抽取的样本相比，从经历了超指数增长的群体中抽取的样本显示出非常罕见的变异过多和更快的 LD 衰减。

可用性

FTEC 的源代码可从密歇根大学统计遗传学中心维基上免费下载，网址为 http://genome.sph.umich.edu/wiki/FTEC