Fig. 1: Engineering of CGBEs. | Nature Communications

Fig. 1: Engineering of CGBEs.

From: Optimization of C-to-G base editors with sequence context preference predictable by machine learning methods

Fig. 1

a The C-to-G transversion efficiency of engineered CGBEs with different UNGs at 34 endogenous target sites in HEK293T cells. hUNG for human UNG, eUNG for E.coli UNG, cUNG for C.elegans UNG, mUNG for mouse UNG. P values above each group indicated the comparison with hUNG-CGBE group. b The base editing efficiency of engineered CGBEs at 34 endogenous target sites in HEK293T cells. YE1 = W90Y + R126E. P values above each group indicated the comparison with eUNG-CGBE or cUNG-CGBE group. c The log transformed ratios of C-to-G/C-to-Others editing among engineered CGBEs. P values above each group indicated the comparison with eUNG-CGBE or cUNG-CGBE group. The center line indicates the median, and the bottom and top lines of the box represent the first quartile and third quartile of the values, respectively. Tails extend to the minimum and maximum values. d The C-to-G transversion efficiency of engineered CGBEs at each protospacer position 1–20 (where PAM is at positions 21–23) of 34 endogenous target sites. n = 3 biological replicates for each site. Data are presented as mean values ± SEM. e Comparison of the total number of detected SNVs on DNA level. n = 3 for Cre, eOPTI-CGBE and cOPTI-CGBE group, and n = 6 for BE3 group. P values above each group indicated the comparison with Cre group. The center line indicates the median, and the bottom and top lines of the box represent the first quartile and third quartile of the values, respectively. Tails extend to the minimum and maximum values. f Distribution of mutation types from detected SNVs for indicated groups. g Comparison of the total number of detected RNA SNVs among different groups. n = 3 for GFP and FNLS-BE3 groups, n = 4 for eOPTI-CGBE and cOPTI-CGBE groups. Data are presented as mean values ± SEM. P values above each group indicated the comparison with GFP group. h Distribution of mutation types from detected RNA SNVs for groups transfected with GFP, FNLS-BE3, eOPTI-CGBE, or cOPTI-CGBE plasmid. All P values were calculated by two-sided Wilcoxon rank sum tests.

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