Altendorfer, S.; Zentgraf, J.; Schmitz, J. E.; Plass, C.; Gerhauser, C.; Rahmann, S.

Xenograft sorting tools separate sequenced DNA reads by species. We have enhanced the computational method and tool Xengsort to enable efficient epigenetic profiling of patient-derived xenograft models; it now supports cytosine-converted whole genome or reduced-representation data. Benchmarking Xengsort against several established methods (ICRG, bamcmp, XenofilteR) revealed consistently high accuracy across tools, but Xengsort outperformed the other tools in computational efficiency due to its alignment-free design.