An assessment of computational methods for estimating purity and clonality using genomic data derived from heterogeneous tumor tissue samples

V. K. Yadav, S. De
2014 Briefings in Bioinformatics  
Solid tumor samples typically contain multiple distinct clonal populations of cancer cells, and also stromal and immune cell contamination. A majority of the cancer genomics and transcriptomics studies do not explicitly consider genetic heterogeneity and impurity, and draw inferences based on mixed populations of cells. Deconvolution of genomic data from heterogeneous samples provides a powerful tool to address this limitation. We discuss several computational tools, which enable deconvolution
more » ... f genomic and transcriptomic data from heterogeneous samples. We also performed a systematic comparative assessment of these tools. If properly used, these tools have potentials to complement single-cell genomics and immunoFISH analyses, and provide novel insights into tumor heterogeneity.
doi:10.1093/bib/bbu002 pmid:24562872 pmcid:PMC4794615 fatcat:mcg7fqdg65gbhnc7okknmpz774