(Q34064859)

30 July 2017

title

Timing and order of transmission events is not directly reflected in a pathogen phylogeny (English)

1 reference

30 July 2017

1 reference

5

Thomas Leitner

1 reference

30 July 2017

4

Jan Albert

1 reference

30 July 2017

author name string

Ethan Romero-Severson

series ordinal

1

1 reference

30 July 2017

Helena Skar

series ordinal

2

1 reference

30 July 2017

Ingo Bulla

series ordinal

3

1 reference

30 July 2017

publication date

29 May 2014

1 reference

Molecular Biology and Evolution

30 July 2017

published in

1 reference

30 July 2017

volume

31

1 reference

30 July 2017

issue

9

1 reference

30 July 2017

page(s)

2472-2482

1 reference

The undiagnosed HIV epidemic in France and its implications for HIV screening strategies

30 July 2017

cites work

1 reference

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Loss and recovery of genetic diversity in adapting populations of HIV

5 July 2018

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HIV-1 transmission during early infection in men who have sex with men: a phylodynamic analysis

5 July 2018

1 reference

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Towards estimation of HIV-1 date of infection: a time-continuous IgG-model shows that seroconversion does not occur at the midpoint between negative and positive tests

5 July 2018

1 reference

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jModelTest 2: more models, new heuristics and parallel computing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Agent-based and phylogenetic analyses reveal how HIV-1 moves between risk groups: injecting drug users sustain the heterosexual epidemic in Latvia

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Estimating the strength of selective sweeps from deep population diversity data.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Low prevalence of transmitted drug resistance in patients newly diagnosed with HIV-1 infection in Sweden 2003-2010

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Ambiguous nucleotide calls from population-based sequencing of HIV-1 are a marker for viral diversity and the age of infection

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Dynamics of two separate but linked HIV-1 CRF01_AE outbreaks among injection drug users in Stockholm, Sweden, and Helsinki, Finland

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Phylogenetic approach reveals that virus genotype largely determines HIV set-point viral load

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

HIV-2 genetic evolution in patients with advanced disease is faster than that in matched HIV-1 patients

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Treatment to prevent transmission of HIV-1

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Molecular epidemiology reveals long-term changes in HIV type 1 subtype B transmission in Switzerland

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Evolutionary analysis of the dynamics of viral infectious disease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Dynamic correlation between intrahost HIV-1 quasispecies evolution and disease progression

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Recent developments in the MAFFT multiple sequence alignment program

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

BEAST: Bayesian evolutionary analysis by sampling trees

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Unequal evolutionary rates in the human immunodeficiency virus type 1 (HIV-1) pandemic: the evolutionary rate of HIV-1 slows down when the epidemic rate increases

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Species trees from gene trees: reconstructing Bayesian posterior distributions of a species phylogeny using estimated gene tree distributions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Selection on the human immunodeficiency virus type 1 proteome following primary infection

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Discordance of species trees with their most likely gene trees.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Molecular footprint of drug-selective pressure in a human immunodeficiency virus transmission chain

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

PHYML Online--a web server for fast maximum likelihood-based phylogenetic inference

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Performance characteristics of the immunoglobulin G-capture BED-enzyme immunoassay, an assay to detect recent human immunodeficiency virus type 1 seroconversion

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

The molecular clock of HIV-1 unveiled through analysis of a known transmission history

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Coalescent estimates of HIV-1 generation time in vivo

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Stochastic processes strongly influence HIV-1 evolution during suboptimal protease-inhibitor therapy

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

SplitsTree: analyzing and visualizing evolutionary data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Analysis of HIV-1 env gene sequences reveals evidence for a low effective number in the viral population

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Accurate reconstruction of a known HIV-1 transmission history by phylogenetic tree analysis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

HIV-1 dynamics in vivo: virion clearance rate, infected cell life-span, and viral generation time

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Selection for specific sequences in the external envelope protein of human immunodeficiency virus type 1 upon primary infection

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Relationships between gene trees and species trees

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Interactive analysis of phylogeny and character evolution using the computer program MacClade.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Relationship of human immunodeficiency virus type 1 sequence heterogeneity to stage of disease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

HIV-1 genomic RNA diversification following sexual and parenteral virus transmission

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

Prevalence of drug resistance and importance of viral load measurements in Honduran HIV-infected patients failing antiretroviral treatment

5 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSU179

Determination of mean recency period for estimation of HIV type 1 Incidence with the BED-capture EIA in persons infected with diverse subtypes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSU179

Discordance of species trees with their most likely gene trees: the case of five taxa.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSU179

Adaptive evolution of human immunodeficiency virus-type 1 during the natural course of infection

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSU179

HIV/AIDS in Europe: trends and EU-wide priorities.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4137707

HIV-1 transmission cluster with M41L 'singleton' mutation and decreased transmission of resistance in newly diagnosed Swedish homosexual men

28 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24874208

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Analysis of heterogeneous viral populations by direct DNA sequencing

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24874208

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Correlation between HIV sequence evolution, specific immune response and clinical outcome in vertically infected infants

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24874208

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/MOLBEV/MSU179

1 reference

30 July 2017

1 reference

30 July 2017

1 reference