Literature DB >> 12376389

GENIE: estimating demographic history from molecular phylogenies.

O G Pybus1, A Rambaut.   

Abstract

UNLABELLED: 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. AVAILABILITY: GENIE is available from http://evolve.zoo.ox.ac.uk. All popular operating systems are supported.

Mesh：

Year:  2002        PMID： 12376389     DOI： 10.1093/bioinformatics/18.10.1404

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  35 in total

1.  Assessing the effects of human mixing patterns on human immunodeficiency virus-1 interhost phylogenetics through social network simulation.

Authors:  Steven M Goodreau
Journal:  Genetics       Date:  2006-04       Impact factor: 4.562

2.  Genetic analysis reveals the complex structure of HIV-1 transmission within defined risk groups.

Authors:  Stéphane Hué; Deenan Pillay; Jonathan P Clewley; Oliver G Pybus
Journal:  Proc Natl Acad Sci U S A       Date:  2005-03-14       Impact factor: 11.205

Review 3.  New methods for inferring population dynamics from microbial sequences.

Authors:  Marcos Pérez-Losada; Megan L Porter; Loubna Tazi; Keith A Crandall
Journal:  Infect Genet Evol       Date:  2006-04-19       Impact factor: 3.342

4.  Human immunodeficiency virus type 1 env evolves toward ancestral states upon transmission to a new host.

Authors:  Joshua T Herbeck; David C Nickle; Gerald H Learn; Geoffrey S Gottlieb; Marcel E Curlin; Laura Heath; James I Mullins
Journal:  J Virol       Date:  2006-02       Impact factor: 5.103

5.  Explosive Pleistocene diversification and hemispheric expansion of a "great speciator".

Authors:  Robert G Moyle; Christopher E Filardi; Catherine E Smith; Jared Diamond
Journal:  Proc Natl Acad Sci U S A       Date:  2009-01-30       Impact factor: 11.205

6.  Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics.

Authors:  Vladimir N Minin; Erik W Bloomquist; Marc A Suchard
Journal:  Mol Biol Evol       Date:  2008-04-11       Impact factor: 16.240

7.  Coalescent simulation of intracodon recombination.

Authors:  Miguel Arenas; David Posada
Journal:  Genetics       Date:  2009-11-23       Impact factor: 4.562

8.  Some considerations for analyzing biodiversity using integrative metagenomics and gene networks.

Authors:  Lucie Bittner; Sébastien Halary; Claude Payri; Corinne Cruaud; Bruno de Reviers; Philippe Lopez; Eric Bapteste
Journal:  Biol Direct       Date:  2010-07-30       Impact factor: 4.540

9.  Phylodynamic analysis of human immunodeficiency virus type 1 in distinct brain compartments provides a model for the neuropathogenesis of AIDS.

Authors:  Marco Salemi; Susanna L Lamers; Stephanie Yu; T de Oliveira; Walter M Fitch; Michael S McGrath
Journal:  J Virol       Date:  2005-09       Impact factor: 5.103

10.  High dispersal potential has maintained long-term population stability in the North Atlantic copepod Calanus finmarchicus.

Authors:  Jim Provan; Gemma E Beatty; Sianan L Keating; Christine A Maggs; Graham Savidge
Journal:  Proc Biol Sci       Date:  2009-01-22       Impact factor: 5.349
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