(Q42999284)

English

Analysis of the overdispersed clock in the short-term evolution of hepatitis C virus: Using the E1/E2 gene sequences to infer infection dates in a single source outbreak

scientific article published on 3 April 2006

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scholarly article

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

Analysis of the overdispersed clock in the short-term evolution of hepatitis C virus: Using the E1/E2 gene sequences to infer infection dates in a single source outbreak (English)

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

Hepatitis C virus

1 reference

based on heuristic

inferred from title

Maria Alma Bracho

4

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

6

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

Manuela Torres-Puente

object named as

Manuela Torres-Puente

2

0 references

Inmaculada García-Robles

object named as

Inmaculada García-Robles

5

0 references

object named as

Borys Wróbel

1

0 references

Fernando González-Candelas

7

object named as

Fernando González-Candelas

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

author name string

Nuria Jiménez

3

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

publication date

3 April 2006

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

Molecular Biology and Evolution

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

23

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

6

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

1242-1253

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

Recent evolutionary history of human immunodeficiency virus type 1 subtype B: reconstruction of epidemic onset based on sequence distances to the common ancestor

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular clock-like evolution of human immunodeficiency virus type 1.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Immune selection and genetic sequence variation in core and envelope regions of hepatitis C virus.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Intrahost human immunodeficiency virus type 1 evolution is related to length of the immunocompetent period

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evolutionary mechanisms and population dynamics of the third variable envelope region of HIV within single hosts

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Conservation of the Conformation and Positive Charges of Hepatitis C Virus E2 Envelope Glycoprotein Hypervariable Region 1 Points to a Role in Cell Attachment

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Compartmentalization of hepatitis C virus quasispecies in blood mononuclear cells of patients with mixed cryoglobulinemic syndrome

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Hypervariable region 1 of hepatitis C virus: immunological decoy or biologically relevant domain?

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Heterogeneous virologic response rates to interferon-based therapy in patients with chronic hepatitis C: who responds less well?

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular Clocks and the Puzzle of RNA Virus Origins

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Acute hepatitis C virus structural gene sequences as predictors of persistent viremia: hypervariable region 1 as a decoy

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

HCV quasispecies evolution: association with progression to end-stage liver disease in hemophiliacs infected with HCV or HCV/HIV.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

U.S. Human immunodeficiency virus type 1 epidemic: date of origin, population history, and characterization of early strains

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A statistical characterization of consistent patterns of human immunodeficiency virus evolution within infected patients

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Frequent compartmentalization of hepatitis C virus variants in circulating B cells and monocytes.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular testing of multiple HIV-1 transmissions in a criminal case.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Ancient DNA enables timing of the pleistocene origin and holocene expansion of two adélie penguin lineages in antarctica

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evaluation of Accumulation of Hepatitis C Virus Mutations in a Chronically Infected Chimpanzee: Comparison of the Core, E1, HVR1, and NS5b Regions

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comparison of the rate of sequence variation in the hypervariable region of E2/NS1 region of hepatitis C virus in normal and hypogammaglobulinemic patients

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Limitations of a molecular clock applied to considerations of the origin of HIV-1.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular epidemiology and forensic genetics: application to a hepatitis C virus transmission event at a hemodialysis unit.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Tracing the origin and history of the HIV-2 epidemic

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Relaxed phylogenetics and dating with confidence

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evolutionary dynamics of human retroviruses investigated through full-genome scanning.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular epidemiology of an outbreak of infection with hepatitis C virus in recipients of anti-D immunoglobulin

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Weighted least-squares likelihood ratio test for branch testing in phylogenies reconstructed from distance measures.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular epidemiology of a hepatitis C virus outbreak in a hemodialysis unit

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Rise and fall of the Beringian steppe bison

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Hepatitis C virus population analysis of a single-source nosocomial outbreak reveals an inverse correlation between viral load and quasispecies complexity

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dominant role of host selective pressure in driving hepatitis C virus evolution in perinatal infection.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Unifying the epidemiological and evolutionary dynamics of pathogens

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Recombination and the molecular clock

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Different evolutionary patterns are found within human immunodeficiency virus type 1-infected patients

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nonrandom distribution of hepatitis C virus quasispecies in plasma and peripheral blood mononuclear cell subsets

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The epidemiology and iatrogenic transmission of hepatitis C virus in Egypt: a Bayesian coalescent approach

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The inference of stepwise changes in substitution rates using serial sequence samples

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Site stripping based on likelihood ratio reduction is a useful tool to evaluate the impact of non-clock-like behavior on viral phylogenetic reconstructions

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular evolutionary analyses implicate injection treatment for schistosomiasis in the initial hepatitis C epidemics in Japan

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

MODELTEST: testing the model of DNA substitution

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Accuracy of rate estimation using relaxed-clock models with a critical focus on the early metazoan radiation

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Rates of molecular evolution in RNA viruses: a quantitative phylogenetic analysis

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

An African HIV-1 sequence from 1959 and implications for the origin of the epidemic

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

MrBayes 3: Bayesian phylogenetic inference under mixed models

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The molecular population genetics of HIV-1 group O

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dating the common ancestor of SIVcpz and HIV-1 group M and the origin of HIV-1 subtypes using a new method to uncover clock-like molecular evolution

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Viral persistence, antibody to E1 and E2, and hypervariable region 1 sequence stability in hepatitis C virus-inoculated chimpanzees

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

High rate of viral evolution associated with the emergence of carnivore parvovirus

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Outcome in a hepatitis C (genotype 1b) single source outbreak in Germany--a 25-year multicenter study

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Rapid sequence variation of the hypervariable region of hepatitis C virus during the course of chronic infection

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Date of origin of the SARS coronavirus strains

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Quasispecies heterogeneity within the E1/E2 region as a pretreatment variable during pegylated interferon therapy of chronic hepatitis C virus infection.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

HyPhy: hypothesis testing using phylogenies

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Wide range of quasispecies diversity during primary hepatitis C virus infection

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comparative rates of nucleotide sequence variation in the hypervariable region of E1/E2 and the NS5b region of hepatitis C virus in patients with a spectrum of liver disease resulting from a common source of infection

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evolutionary trends of the first hypervariable region of the hepatitis C virus E2 protein in individuals with differing liver disease severity

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The outcome of acute hepatitis C predicted by the evolution of the viral quasispecies

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The causes and consequences of HIV evolution

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Long-term evolution of the hypervariable region of hepatitis C virus in a common-source-infected cohort.

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Compartmentalization of hepatitis C virus genotypes between plasma and peripheral blood mononuclear cells

1 reference

https://pubmed.ncbi.nlm.nih.gov/16585120

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/MOLBEV/MSK012

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

PMC publication ID

0 references

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

12 November 2017

ResearchGate publication ID

0 references

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