PhyloWGS: Reconstructing subclonal composition and evolution from whole-genome sequencing of tumors

@inproceedings{Deshwar2015PhyloWGSRS,
  title={PhyloWGS: Reconstructing subclonal composition and evolution from whole-genome sequencing of tumors},
  author={Amit G. Deshwar and Shankar Vembu and Christina K. Yung and Gun Ho Jang and Lincoln Stein and Quaid Morris},
  booktitle={Genome Biology},
  year={2015}
}
Tumors often contain multiple subpopulations of cancerous cells defined by distinct somatic mutations. We describe a new method, PhyloWGS, which can be applied to whole-genome sequencing data from one or more tumor samples to reconstruct complete genotypes of these subpopulations based on variant allele frequencies (VAFs) of point mutations and population frequencies of structural variations. We introduce a principled phylogenic correction for VAFs in loci affected by copy number alterations… CONTINUE READING
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Properties of a neutral allele model with intragenic recombination

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