Figure 3.

On-target Cas9-mediated edits in test datasets. (A) Transcript expression log2 fold change of genes targeted for Cas9-directed knockout or knockin computed by comparing expression levels in edited and non-edited cells with DESeq2. Significance determined by the Benjamini-Hochberg adjusted Wald test. (B) Fraction of reads mapping to edited nucleotides carrying the reference allele (REF), the alternative one (the intended edit) (ALT) or anything else (variant/indel/skip) (OTHER) in the test datasets GRIN2B, APOE, and PIK3CA-HET. The genomic coordinates of the edit in the human genome (hg38) are reported on the X-axis. Cell replicates are represented with different symbols. Note that only two of the three edited replicates of PIK3CA-HET have reads overlapping the loci described.