Extended Data Fig. 2: CRISPRi-FlowFISH reproducibly quantifies effects of regulatory elements.
From: Activity-by-contact model of enhancer–promoter regulation from thousands of CRISPR perturbations
a, Cumulative distribution plot of the number of gRNAs in each tested candidate element. b, Cumulative distribution plot of the width of each tested candidate element. c, Correlation between independent CRISPRi-FlowFISH screens for GATA1. Red points denote elements significantly affecting expression. Pearson R = 0.94 for significant elements, 0.37 for all elements. d, Quantile-quantile plot for GATA1 CRISPRi-FlowFISH screen. Red points denote elements significantly affecting expression. Vertical axis capped at 10-20. e, Pearson correlation between effect on gene expression as measured by CRISPRi-FlowFISH screening and RT-qPCR for 42 E-G pairs tested by both methods. Value is the mean effect of the two gRNAs for each element. f, Pearson correlation between effects on gene expression for all significant E-G pairs measured in biologically independent CRISPRi-FlowFISH screens. P-values, test statistics, confidence intervals, effect sizes, and degrees of freedom for all panels are available in Supplementary Table 3.
