Extended Data Fig. 4: Properties of APOBEC mutations.

a, Estimated timings of branches containing >10 APOBEC mutations. Using the estimated clock-like mutation rate for HSPCs, branch start- and end-points in molecular time were converted to estimated chronological age and plotted as a vertical bar. Estimated timing of transplant for each recipient is plotted as a horizontal dashed line. All bars end above this age-of-transplant line, and many begin above it, suggesting that APOBEC mutations occur at the time of or subsequent to the transplant. b, P values of a generalized linear mixed effects model to identify factors predicting presence of APOBEC mutations in a given colony, showing that the only significant variable was the enrichment of the signature in recipient versus donor colonies. c, Genomic features significantly associated with distribution of APOBEC mutations in recipient colonies. Associations between different genomic properties (rows) and all mutations (left column), APOBEC mutations (middle column) and APOBEC mutations normalized by the density of non-APOBEC mutations (right column). Each density curve represents the quantile distribution of the genomic property values at observed positions of mutations compared to random genome positions. Shown are the genomic properties that are statistically significant using generalized additive models after multiple hypothesis test correction (q < 0.1).