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Fig. 1 | Retrovirology

Fig. 1

From: Utilization of HIV-1 envelope V3 to identify X4- and R5-specific Tat and LTR sequence signatures

Fig. 1

HIV-1 genetic diversity is highly correlated between corresponding positions in R5- and X4-classified gp120, Tat, and LTR sequence populations. The genetic diversity (order = 1) of each position of gp120, Tat, and LTR was calculated according to Eq. 1. The positions were sorted across the x-axis according to the R5 diversity values (red line), with the corresponding X4 positions plotted (blue dots). With this visualization, the vertical distance between the line and the corresponding dot represents the difference in diversity between the R5- and X4-classified sequences at each position. In general, the X4 values were found to cluster around the R5 values, with a slight skew towards less diversity within the X4 population. Spearman’s rank correlation was performed to assess the correlation between R5 and X4 diversity for gp120 (ρ = 0.8678, P = 2.00 × 10−156), Tat (ρ = 0.8873, P = 4.67 × 10−35), and LTR (ρ = 0.7021, P = 4.06 × 10−78). In all cases, R5 and X4 diversity were well-correlated

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