GENIE: estimating demographic history from molecular phylogenies

被引：108

作者：

Pybus, OG ^{[1
]}

Rambaut, A ^{[1
]}

机构：

[1] Univ Oxford, Dept Zool, Oxford OX1 3PS, England

来源：

BIOINFORMATICS | 2002年 / 18卷 / 10期

基金：

英国惠康基金;

关键词：

D O I：

10.1093/bioinformatics/18.10.1404

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

GENIE implements a statistical framework for inferring the demographic history of a population from phylogenies that have been reconstructed from sampled DNA sequences. The methods are based on population genetic models known collectively as coalescent theory.

引用

收藏

页码：1404 / 1405

页数：2

相关论文

共 9 条

[1] Reconstructing genealogies of serial samples under the assumption of a molecular clock using serial-sample UPGMA [J].

Drummond, A ;

Rodrigo, AG .

MOLECULAR BIOLOGY AND EVOLUTION, 2000, 17 (12) :1807-1815

[2] SAMPLING THEORY FOR NEUTRAL ALLELES IN A VARYING ENVIRONMENT [J].

GRIFFITHS, RC ;

TAVARE, S .

PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY OF LONDON SERIES B-BIOLOGICAL SCIENCES, 1994, 344 (1310) :403-410

[3]

Kingman J.F., 1982, J. Appl. Probab., P27, DOI DOI 10.2307/3213548

[4]

Pybus OG, 2000, GENETICS, V155, P1429

[5] The epidemic behavior of the hepatitis C virus [J].

Pybus, OG ;

Charleston, MA ;

Gupta, S ;

Rambaut, A ;

Holmes, EC ;

Harvey, PH .

SCIENCE, 2001, 292 (5525) :2323-2325

[6] Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies [J].

Rambaut, A .

BIOINFORMATICS, 2000, 16 (04) :395-399

[7]

RODRIGO AG, 1999, EVOLUTION HIV

[8] Estimating absolute rates of molecular evolution and divergence times: A penalized likelihood approach [J].

Sanderson, MJ .

MOLECULAR BIOLOGY AND EVOLUTION, 2002, 19 (01) :101-109

[9] Exploring the demographic history of DNA sequences using the generalized skyline plot [J].

Strimmer, K ;

Pybus, OG .

MOLECULAR BIOLOGY AND EVOLUTION, 2001, 18 (12) :2298-2305