The MiSeq Illumina deep sequencing system for determining HIV-1 coreceptor use and compared it to that of the 454 GS-Junior Roche method. The capacities of the two deep sequencing methods for determining HIV-1 tropism in clinical samples were also compared to the reference phenotypic method. We first determined the error rate of the NGS resulting from PCR bias and sequencing errors. The error rate
The MiSeq Illumina deep sequencing system for determining HIV-1 coreceptor use and compared it to that of the 454 GS-Junior Roche method. The capacities of the two deep sequencing methods for determining HIV-1 tropism in clinical samples were also compared to the reference phenotypic method. We first determined the error rate of the NGS resulting from PCR bias and sequencing errors. The error rate
Are located in a homopolymeric region. We evaluated the sensitivity of the NGS for quantifying CXCR4-using variants with artificial mixtures of pure X4 (CHS02) and R5 (CHS11) virus clones. The MiSeq NGS detected 0.5 of X4 viruses in 2/3 mixtures and 1 in 3/3 mixtures. The 454 GS-Junior NGS detected 1 of X4 viruses in 2/3 mixtures and 5 of X4 viruses in 3/3 mixtures (Table 1). Linear regression
L V3 variants of 20 virus clones. The position mean (red line) is the error rate estimated at each position of V3 by comparing the UDS reads to the Sanger sequences of 20 clones. The shaded regions represent the 99 confidence interval of global (blue) and position (red) mean error rates.compare the systems. The mean frequency of V3 variant artifacts found with the 454 GS-Junior was 0.018 [exact
Ariants quantified by 454 GS-Junior. Solid black line is the regression line. Dotted black lines show the 95 confidence interval of the mean.Comparison of deep sequencing and a phenotypic method for predicting tropism.We compared the genotypic predictions obtained using the MiSeq and 454 GS-Junior systems and the Pyrovir tropism prediction (http://diag.ablsa.com/pyrovir/submit.php ) and the pheno
Nding gendered influences on women's reproductive health in Pakistan: moving beyond the autonomy paradigm. Soc. Sci. Med., 68(7), 1349-56. http://dx.doi.org/10.1016/j.socscimed.2009.01.025 National Institute of Population Studies (NIPS) Islamabad Pakistan Macro International Inc. USA (June 2008). Pakistan Demographic and Health Survey 2006-07. Patton, M. Q. (1999). Enhancing the quality and credib
Nding gendered influences on women's reproductive health in Pakistan: moving beyond the autonomy paradigm. Soc. Sci. Med., 68(7), 1349-56. http://dx.doi.org/10.1016/j.socscimed.2009.01.025 National Institute of Population Studies (NIPS) Islamabad Pakistan Macro International Inc. USA (June 2008). Pakistan Demographic and Health Survey 2006-07. Patton, M. Q. (1999). Enhancing the quality and credib
Anti-HIV therapeutic levels in the CNS.NIH-PA Author Manuscript NIH-PA Author Manuscript NIH-PA Author ManuscriptDISCUSSIONEffective CNS delivery of many drugs, especially hydrophilic and negatively charged molecules, still remains an unsolved dilemma. Progress of nanotechnology and development of novel particulate drug delivery systems resulted in the extensive search for drug nanoformulations th