Quantitative Estimation of Viral Fitness Using Pyrosequencing™
نویسندگان
چکیده
منابع مشابه
Quantitative estimation of viral fitness using Pyrosequencing.
The detection of sequence changes in a virus population is generally accomplished by the subcloning of individual genomes and the subsequent sequence analysis of a statistically significant number of isolated samples. This method is useful for the identification of mutant alleles arising from drug resistance or reversion from a defective phenotype but is not practical as a protocol to track seq...
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The diversity of virus populations within single infected hosts presents a major difficulty for the natural immune response as well as for vaccine design and antiviral drug therapy. Recently developed pyrophosphate-based sequencing technologies (pyrosequencing) can be used for quantifying this diversity by ultra-deep sequencing of virus samples. We present computational methods for the analysis...
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In order to develop a better understanding of the evolutionary dynamics of HIV drug resistance, it is necessary to quantify accurately the in vivo fitness costs of resistance mutations. However, the reliable estimation of such fitness costs is riddled with both theoretical and experimental difficulties. Experimental fitness assays typically suffer from the shortcoming that they are based on in ...
متن کاملTranslating HIV sequences into quantitative fitness landscapes to predict viral vulnerabilities for rational immunogen design
1Department of Chemical Engineering, MIT, Cambridge, MA 02139, USA, 2Ragon Institute of Massachusetts General Hospital, Massachusetts Institute of Technology and Harvard University, Boston, MA 02129, USA, 3HIV Pathogenesis Programme, The Doris Duke Medical Research Institute, and KwaZulu-Natal Research Institute for Tuberculosis and HIV (K-RITH), University of KwaZulu-Natal, Durban 4013, South ...
متن کاملTranslating HIV sequences into quantitative fitness landscapes predicts viral vulnerabilities for rational immunogen design.
A prophylactic or therapeutic vaccine offers the best hope to curb the HIV-AIDS epidemic gripping sub-Saharan Africa, but it remains elusive. A major challenge is the extreme viral sequence variability among strains. Systematic means to guide immunogen design for highly variable pathogens like HIV are not available. Using computational models, we have developed an approach to translate availabl...
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ژورنال
عنوان ژورنال: BioTechniques
سال: 2003
ISSN: 0736-6205,1940-9818
DOI: 10.2144/03341bm01