Advanced Molecular Surveillance of Hepatitis C Virus

@article{GonalvesRossi2015AdvancedMS,
  title={Advanced Molecular Surveillance of Hepatitis C Virus},
  author={Livia Maria Gonçalves Rossi and Alejandro Escobar-Guti{\'e}rrez and Paula Rahal},
  journal={Viruses},
  year={2015},
  volume={7},
  pages={1153 - 1188}
}
Hepatitis C virus (HCV) infection is an important public health problem worldwide. HCV exploits complex molecular mechanisms, which result in a high degree of intrahost genetic heterogeneity. This high degree of variability represents a challenge for the accurate establishment of genetic relatedness between cases and complicates the identification of sources of infection. Tracking HCV infections is crucial for the elucidation of routes of transmission in a variety of settings. Therefore… Expand
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References

SHOWING 1-10 OF 265 REFERENCES
Hepatitis C virus molecular evolution: transmission, disease progression and antiviral therapy.
TLDR
The rapidly evolving field of anti-HCV therapy is expected to broad its landscape even further with newer, more potent antivirals, bringing us one step closer to the interferon-free era. Expand
Molecular surveillance of hepatitis C.
TLDR
Integration of genetic testing with computational models that automatically interpret the complex genetic parameters into transmission events and virulence is fundamental to comprehensive molecular surveillance of hepatitis C. Expand
Vertical transmission of hepatitis C virus: a tale of multiple outcomes.
TLDR
The differences in the degree of divergence suggest that the mode of transmission of the virus was not the main factor driving viral evolution, and that immune system dysfunction related to HIV coinfection or persistent HCV seronegativity stand as potential mechanisms to explain the lack of molecular evolution observed. Expand
Role of viral and host factors in interferon based therapy of hepatitis C virus infection
TLDR
The goal of this review article is to summarize the impact of recent scientific advances in this area regarding the understanding of human and HCV genetic variations and their effect on treatment outcomes. Expand
A New Evolutionary Model for Hepatitis C Virus Chronic Infection
TLDR
P phylogenetic analyses of within-patient HCV sequences indicate that this simple evolutionary model is insufficient to explain HCV evolutionary dynamics during infection, and it is suggested that the diversity scores commonly used in HCV studies do not fully represent the dynamics of infection. Expand
Epidemiology of hepatitis C virus infection.
TLDR
The high prevalence of anti-HCV detected in HCC suggests that HCV is a major co-factor in the development of HCC and again raises the issue of viral persistence and neoplastic transformation, an issue that for HBV has not yet been elucidated. Expand
Evidence of Recombination in Intrapatient Populations of Hepatitis C Virus
TLDR
It is concluded that recombination should be considered as a potentially relevant mechanism generating genetic variation in HCV and with important implications for the treatment of this infection. Expand
Transmission of hepatitis C virus: self-limiting hepatitis or chronic hepatitis?
TLDR
The evolutionary dynamics of the infecting virus and host genetic polymorphisms pertaining mainly to the immune system, including polymorphisms in the region of the Interleukin 28B gene encoding interferon-λ-3, are associated with susceptibility to HCV infection. Expand
Evolving epidemiology of hepatitis C virus.
  • D. Lavanchy
  • Medicine
  • Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases
  • 2011
TLDR
The present assessment finds a global prevalence of 2.35%, affecting 160 million chronically infected individuals, and there is an urgent need for more accurate Information on the costs and burden of HCV to society. Expand
Detection of hepatitis C virus transmission by use of DNA mass spectrometry.
TLDR
The development of a novel mass spectrometry (MS)-based approach to identify HCV transmission is described, which is rapid, robust, reproducible, cost-effective, and applicable to investigating transmissions of other pathogens. Expand
...
1
2
3
4
5
...