Figure 3.

Use of PETI to generate a cancer-associated translocation

(A and B) Schematic of the chromosomes before and after the reciprocal translocations generating the NPM1-ALK (a) and KIF5B-ALK fusion (b). (C and D) Representative results of relative frequency of sequence reads in PCR amplicons amplified by translocation-specific primers amplifying either junction-1 or junction-2. (E) Targeted deep sequencing of amplicons generated using translocation-specific primers. The bar charts represent the fraction of reads with direct translocations (blue), PETI-guided translocations (orange), and translocations with unwanted indels (gray). (F) Fraction of sequencing reads of multiplex PCR amplicons generated from desired and undesired PE2-, Cas9 nuclease-, and PE2 nuclease-mediated translocations. Data are presented as mean ± SEM (n = 3 biologically independent samples).