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Figure 3 | BMC Genomics

Figure 3

From: An efficient RNA interference screening strategy for gene functional analysis

Figure 3

Schematic diagram of the hierarchical RNAi analysis for identifying genes that are involved in a specific phenotype. R = {r 1 , r 2 , …, r k } is the set of qualified siRNAs that were selected by our modified algorithm. The candidate-genes in each ellipse are the target genes of each available siRNA r i . In the first-round RNAi analysis, we can quickly determine which candidate-genes could be related to the target phenotype based on the RNAi experiment results. The green ellipse represents the target phenotype that was affected in the RNAi experiment with r i , whereas the blue ellipse indicates that the target phenotype was not affected. In the second-round RNAi analysis, we further examined the candidate-genes in the green ellipses to precisely identify the related genes. However, the complementary strand of the selected siRNA, r i , can also be loaded into the RISC, and it could facilitate RNAi. A gene that contains a subsequence that contains no more than d T mismatches to r i would be regarded as the possible target gene of r i , which is defined as X i . To precisely identify the associated gene from the genes that are affected by r i and r i , we would silence those genes one-on-one to identify which genes were definitively associated with the target phenotype.

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