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Fig. 4 | Genome Biology

Fig. 4

From: ZetaSuite: computational analysis of two-dimensional high-throughput data from multi-target screens and single-cell transcriptomics

Fig. 4

Hit selection based on Screen Strength and strategy to filter out off-target effects. a The comparison of the Screen Strength before (blue) and after (red) filtering out off-targets. BP: balance point. Note that the Screen Strength based on the threshold defined by the commonly used balanced error level (BRL) approach is also indicated (see Additional file 1: Fig. S4a). Empirical FPL lines (0.05 and 0.01) are also indicated. Those between BP1 and BP2 are candidate hits and those after BP2 are high confidence hits. b Weighed ΞΆ-scores of expressed and non-expressed genes. A specific region is enlarged on the right for comparative purpose. bFDR: baseline FDR. BP1 and BP2 are according to those defined in a. c Strategy to filter out off-target effects based on similarity in response and sequence complementarity. d Comparison of AS events responsive to knockdown of SNRPA1 and SF3B1 or SNRPB and FCHO1 in primary screen. Pearson correlation score is indicated in each case. e Comparison of AS events responsive to knockdown of the siRNA pool vs individual siRNAs against SNRPA1 or SF3B1 in the secondary screen. The third row shows the comparison between the siRNA pool against SF3B1 and individual siRNAs against SNRPA1. f The sequence of a single siRNA targeting FCHO1 is aligned with its potential off-target on the SNRPB transcript. g Comparison of AS events responsive to knockdown of the siRNA pool vs individual siRNAs against FCHO1 or SNRPB in the secondary screen. The third row shows the comparison between the siRNA pool against SNRPB and individual siRNAs against FCHO1. Purple highlights the predicted off-targeting siRNA

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