Fig. 3: Comparative analysis of base editing efficiencies and bystander editing of BE4max, Sdd7, Sdd7e1, and Sdd7e2.
From: Engineered Sdd7 cytosine base editors with enhanced specificity
a Bar graphs displaying the base editing frequencies of BE4max, Sdd7, Sdd7e1, and Sdd7e2 at 30 genomic sites. Data are presented as mean values, with error bars indicating SEM from independent biological triplicates. b Representative Box-and-whisker plots illustrating the distribution of base editing frequencies (left) and indel frequencies (right) for BE4max, Sdd7, Sdd7e1, and Sdd7e2 across the 30 endogenous target sites. Statistical analysis measured by * p ≤ 0.05, and ** p ≤ 0.01 (Student’s two-tailed t-test). c Representative Box-and-whisker plots showing the base editing efficiencies at each protospacer position (positions 1–20, numbered from the 5′ to 3′ end) for BE4max, Sdd7, Sdd7e1, and Sdd7e2, aggregated from the 30 endogenous sites. d Bar graphs depicting the fractions of modified bases (number of mutated cytosines) within the protospacer regions at the RNF2 and HEK3 sites for BE4max, Sdd7, Sdd7e1, and Sdd7e2. Data are presented as mean values, with error bars indicating SEM from independent biological triplicates. e Representative graph depicting the distribution of base editing frequencies for BE4max, Sdd7, Sdd7e1, and Sdd7e2 across K562, SKOV3, iPSC, and HSC. f Bar graphs illustrating the base editing frequencies for BE4max, Sdd7, Sdd7e1, Sdd7e2, YE1-BE4max, YE2-BE4max, eA3Amax, and TadCBEd at 5 endogenous sites. g Analysis of bystander cytosine editing frequencies in the upstream regions of the target sites (positions −1 to −43) for BE4max, Sdd7, Sdd7e1, and Sdd7e2 across the 30 endogenous sites. Statistical analysis measured by * p ≤ 0.05, ** p ≤ 0.01, and *** p ≤ 0.001 (Student’s two-tailed t-test). For (b, c, e, and g), box plots represented that the median (central line), interquartile range (box, 25th–75th percentiles), and full data range (whiskers, minima to maxima), with individual data points shown as dots. For (e and f), data are presented as mean ± SEM from three independent biological replicates.
