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Published on: April 11, 2016
Global copy number profiling of cancer genomes
Xuefeng Wang1, Mengjie Chen2, Xiaoqing Yu3
1Department of Family, Population & Preventive Medicine, Stony Brook University, Stony Brook, NY 11794, USA, Department of Pathology, Yale School of Medicine, New Haven, CT 06520, USA.
Unlabelled:
In this article, we introduce a robust and efficient strategy for deriving global and allele-specific copy number alternations (CNA) from cancer whole exome sequencing data based on Log R ratios and B-allele frequencies. Applying the approach to the analysis of over 200 skin cancer samples, we demonstrate its utility for discovering distinct CNA events and for deriving ancillary information such as tumor purity.
Availability And Implementation:
https://github.com/xfwang/CLOSE CONTACT: xuefeng.wang@stonybrook.edu or michael.krauthammer@yale.edu
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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