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Bioinformatics. 2012 Sep 1;28(17):2265-6. doi: 10.1093/bioinformatics/bts365. Epub 2012 Jun 28.

PurityEst: estimating purity of human tumor samples using next-generation sequencing data.

Author information

  • 1Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA. xsu1@mdanderson.org

Abstract

We developed a novel algorithm, PurityEst, to infer the tumor purity level from the allelic differential representation of heterozygous loci with somatic mutations in a human tumor sample with a matched normal tissue using next-generation sequencing data. We applied our tool to a whole cancer genome sequencing datasets and demonstrated the accuracy of PurityEst compared with DNA copy number-based estimation.

AVAILABILITY:

PurityEst has been implemented in PERL and is available at http://odin.mdacc.tmc.edu/~xsu1/PurityEst.html.

PMID:
22743227
[PubMed - indexed for MEDLINE]
PMCID:
PMC3426843
Free PMC Article

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