MethylPurify: tumor purity deconvolution and differential methylation detection from single tumor DNA methylomes

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Author
Zheng, Xiaoqi
Zhao, Qian
Wang, Haiyun
Qin, Qian Alvin
Li, Fuqiang
Hou, Yong
He, Jianxing
Wang, Jun
Zhang, Peng
Zhang, Yong
Note: Order does not necessarily reflect citation order of authors.
Published Version
https://doi.org/10.1186/s13059-014-0419-xMetadata
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Zheng, X., Q. Zhao, H. Wu, W. Li, H. Wang, C. A. Meyer, Q. A. Qin, et al. 2014. “MethylPurify: tumor purity deconvolution and differential methylation detection from single tumor DNA methylomes.” Genome Biology 15 (7): 419. doi:10.1186/s13059-014-0419-x. http://dx.doi.org/10.1186/s13059-014-0419-x.Abstract
We propose a statistical algorithm MethylPurify that uses regions with bisulfite reads showing discordant methylation levels to infer tumor purity from tumor samples alone. MethylPurify can identify differentially methylated regions (DMRs) from individual tumor methylome samples, without genomic variation information or prior knowledge from other datasets. In simulations with mixed bisulfite reads from cancer and normal cell lines, MethylPurify correctly inferred tumor purity and identified over 96% of the DMRs. From patient data, MethylPurify gave satisfactory DMR calls from tumor methylome samples alone, and revealed potential missed DMRs by tumor to normal comparison due to tumor heterogeneity. Electronic supplementary material The online version of this article (doi:10.1186/s13059-014-0419-x) contains supplementary material, which is available to authorized users.Other Sources
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4165374/pdf/Terms of Use
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