Extended Data Fig. 7: CGBE editing outcomes in DNA repair deficient cell lines.
From: C-to-G editing generates double-strand breaks causing deletion, transversion and translocation
a, Deletion, substitution frequencies, and C > G purity are plotted for the indicated loci. Mean ± SD of 4 replicates is shown in the bar graph. The expression levels of indicated tools are shown by a representative Western blot on the right. b, Deletion (left) and substitution (right) frequencies were plotted for the 3 indicated loci in the indicated cell lines. Mean ± SD of three replicates is shown in the bar graph. Expression levels of CGBE1 in the indicated cells are shown by a representative Western blot from two biological replicates. A 3-fold serial dilution of protein samples was applied in Western blot. c, MH usage in the deletion junctions at 2 loci in the indicated mouse B cell lines. Mean ± SD of 3 replicates is shown. Two-tailed Student’s paired t-test was applied. d, Fractions of insertions are plotted for the indicated tools. e, Proportions of 1-bp and >1 bp insertions, and proportions of duplication and other insertions of >1 bp insertions are shown. f, Insertions at the SaBE test locus. Four insertion subtypes are shown at the top and example duplications are illustrates at the bottom. g, Negatively-enriched genes in >1 bp insertions. The heatmap is shown as in Fig. 4c. The p-value was also calculated by permutation test and FDR was calculated by the Benjamini-Hochberg procedure from MAGeCK. h, 1 bp and >1 bp insertion profiles of HEK293T XRCC4-/- and its parental cell lines at the sgFANCF locus. i, Expression levels of CGBE1 in the indicated cells are shown by a representative Western blot from two biological replicates. A 3-fold serial dilution of protein samples was applied in Western blot. j, Substitution, C > G purity, >1 bp insertion, and deletion are plotted. Mean ± SD of three replicates. Source numerical data and unprocessed blots are available in source data.
