Fig. 4: HCT-specific selection contributes to decreased recipient diversity.

a, Recipient and donor phylogenies for pair 3, for which there is a large clonal expansion within the recipient that is not evident in the donor. The increased coalescences are from before the time of HCT, consistent with an initial engraftment advantage for this clone (pruning selection). b, Recipient and donor phylogenies for pair 9, for which there is a large clonal expansion within the recipient that is not expanded in the donor. The clone component with loss of Y, but no mutation in TET2, has increased coalescences from before the time of HCT, consistent with an engraftment advantage. The component with both loss of Y and a TET2 mutation has both increased coalescences before and at the time of HCT, consistent with an engraftment and post-engraftment proliferation advantage (pruning and growth selection). c, Recipient and donor phylogenies for pair 7, for which there are large clonal expansions within the recipient that are not evident in the donor that show either pure pruning selection or pure growth selection. d, The pruning and growth selection statistics for each clone that has preferentially expanded in the recipient, illustrating the differences between clones. Shaded areas are estimates of the 95% confidence intervals of these values estimated by node bootstrapping. Clones with driver mutations are labelled with the mutated gene.