Although genomic integration of SJs in some DUX4-r samples (Extended Data Fig. 10c,d) precluded such analyses for this subtype, there was a good correlation between the SJ copy number above the threshold and subsequent relapse for subtypes that usually have a good prognosis (ETV6–RUNX1 and high hyperploid (HeH) BCP-ALL) or an intermediate prognosis (TCF3::PBX BCP-ALL) (Fig. 5f and Extended Data Fig. 10e). This evidence concerns the gene TCF3 and acute lymphoblastic leukemia.