Figure 5
From: An RNAi in silico approach to find an optimal shRNA cocktail against HIV-1
Silencing Model. Targeting dominant variants from two or more regions leaves several subdominant viral variants untargeted. The optimal approach would be a cocktail of carefully selected molecules targeting dominant as well as subdominant variants from more than one conserved region. The figure shows a schematic representation of HIV-1 genome and an MSA of HIV-1 pol gene, in which the strategy of silencing is drawn. Some sequences would be targeted by two shRNAs, some just by one, and a few would not be targeted at all, but are not frequent. W1 and W2 represent the hypothetical targeted regions, where "W" stands for "window".