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Journal of Acquired Immune Deficiency Syndromes, ISSN 1525-4135, 12/2017, Volume 76, Issue 5, p. 445
Background: In the United States (US), foreign-born persons are disproportionately affected by HIV and differ epidemiologically from US-born persons with... 
Disease prevention | Prevention | Polymerase | Sequences | Disease transmission | Human immunodeficiency virus--HIV | Network analysis | Infections | Genetic distance | Medical diagnosis | Epidemiology
Journal Article
Current Biology, ISSN 0960-9822, 02/2017, Volume 27, Issue 3, pp. R119 - R120
Despite evidence of smallpox in antiquity, a new study of a 350 year-old Lithuanian child mummy suggests that the global viral genetic diversity circulating... 
VARIOLA VIRUS | BIOCHEMISTRY & MOLECULAR BIOLOGY | CELL BIOLOGY | Genetic research | Smallpox
Journal Article
Current Opinion in HIV and AIDS, ISSN 1746-630X, 05/2019, Volume 14, Issue 3, pp. 213 - 220
PURPOSE OF REVIEWThe purpose of this study is to summarize recent advances in public health applications of comparative methods for HIV-1 sequence analysis in... 
HIV-1 | molecular epidemiology | INFECTIOUS DISEASES | transmission cluster | RISK | IMMUNOLOGY | HUMAN-IMMUNODEFICIENCY-VIRUS | real-time monitoring | TRANSMISSION NETWORK | IMPACT | CLUSTERS | phylogenetics | sequence analysis | INFECTION | OUTBREAK | Genetic aspects | Research | HIV infection | Analysis | Public health
Journal Article
Current Opinion in HIV and AIDS, ISSN 1746-630X, 05/2019, Volume 14, Issue 3, pp. 205 - 212
PURPOSE OF REVIEWTo discuss the recent HIV phylogenetic analyses examining HIV transmission patterns among and within risk groups. RECENT FINDINGSPhylodynamic... 
INFECTIOUS DISEASES | MSM | fishing | SEX | NETWORKS | CAPE-TOWN | IMMUNOLOGY | sequencing | transmission networks | DRUG-USERS | risk groups | HIV | people who inject drugs | MEN | phylogenetics | MOLECULAR EPIDEMIOLOGY | INFECTION | IDU | TYPE-1 | HIGH PREVALENCE | transgender | REVEALS
Journal Article
The Lancet HIV, ISSN 2352-3018, 07/2019, Volume 6, Issue 7, pp. e420 - e421
Journal Article
Molecular Biology and Evolution, ISSN 0737-4038, 03/2015, Volume 32, Issue 3, p. 820
  Relaxation of selective strength, manifested as a reduction in the efficiency or intensity of natural selection, can drive evolutionary innovation and... 
Bats | Simulation | Genes | Phylogenetics | Bacteria
Journal Article
Molecular Biology and Evolution, ISSN 0737-4038, 09/2014, Volume 31, Issue 9, p. 2356
  Herpesviruses have been infecting and codiverging with their vertebrate hosts for hundreds of millions of years. The primate simplex viruses exemplify this... 
Disease transmission | Evolutionary biology | Herpes viruses | Molecular biology | Biological clocks
Journal Article
Molecular Biology and Evolution, ISSN 0737-4038, 05/2015, Volume 32, Issue 5, p. 1342
  Over the past two decades, comparative sequence analysis using codon-substitution models has been honed into a powerful and popular approach for detecting... 
Evolutionary biology | Genes | Phylogenetics | Comparative analysis
Journal Article
Journal of Acquired Immune Deficiency Syndromes, ISSN 1525-4135, 02/2016, Volume 71, Issue 2, p. 228
  Transmitted drug resistance (TDR) remains an important concern when initiating antiretroviral therapy (ART). Here, we describe the prevalence and... 
Antiretroviral drugs | Human immunodeficiency virus--HIV | Phylogenetics | Mutation | Drug resistance
Journal Article
Evolution, ISSN 0014-3820, 02/2011, Volume 65, Issue 2, p. 309
  The dynamics of species diversification rates are a key component of macroevolutionary patterns. Although not absolutely necessary, the use of divergence... 
Macroevolution | Simulation | Phylogenetics | Bayesian analysis
Journal Article
Molecular Biology and Evolution, ISSN 0737-4038, 12/2011, Volume 28, Issue 12, p. 3355
Statistical methods for molecular dating of viral origins have been used extensively to infer the time of most common recent ancestor for many rapidly evolving... 
Statistical analysis | Genomics | Phylogenetics | Viruses | Epidemiology
Journal Article
Molecular Biology and Evolution, ISSN 0737-4038, 02/2012, Volume 29, Issue 2, p. 451
Rate heterogeneity among lineages is a common feature of molecular evolution, and it has long impeded our ability to accurately estimate the age of... 
Pandemics | Human immunodeficiency virus--HIV | Phylogenetics | Age
Journal Article
Evolution, ISSN 0014-3820, 02/2011, Volume 65, Issue 2, pp. 309 - 320
Journal Article
Molecular Biology and Evolution, ISSN 0737-4038, 2018, Volume 35, Issue 7, pp. 1812 - 1819
In modern applications of molecular epidemiology, genetic sequence data are routinely used to identify clusters of transmission in rapidly evolving pathogens,... 
Molecular epidemiology | Transmission cluster | HIV | Surveillance | Network | molecular epidemiology | UNITED-STATES | transmission cluster | PHYLOGENETIC ANALYSIS | BIOCHEMISTRY & MOLECULAR BIOLOGY | IDENTIFICATION | INFERENCE | network | EVOLUTIONARY BIOLOGY | MODELS | DNA | GENETICS & HEREDITY | INFECTION | surveillance | Resources
Journal Article