Xenome--a tool for classifying reads from xenograft samples

Bioinformatics. 2012 Jun 15;28(12):i172-8. doi: 10.1093/bioinformatics/bts236.


Motivation: Shotgun sequence read data derived from xenograft material contains a mixture of reads arising from the host and reads arising from the graft. Classifying the read mixture to separate the two allows for more precise analysis to be performed.

Results: We present a technique, with an associated tool Xenome, which performs fast, accurate and specific classification of xenograft-derived sequence read data. We have evaluated it on RNA-Seq data from human, mouse and human-in-mouse xenograft datasets.

Availability: Xenome is available for non-commercial use from http://www.nicta.com.au/bioinformatics.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Animals
  • DNA, Complementary / genetics
  • Genome / genetics
  • Humans
  • Mice
  • Sequence Analysis, RNA / methods*
  • Software
  • Transplantation, Heterologous / classification*


  • DNA, Complementary