Article
Contamination source modeling with SCRuB improves cancer phenotype prediction from microbiome data.
Nature biotechnology - 1 Dec 2023
Austin George I, Park Heekuk, Meydan Yoli, Seeram Dwayne, Sezin Tanya, Lou Yue Clare, Firek Brian A, Morowitz Michael J, Banfield Jillian F, Christiano Angela M, Pe'er Itsik, Uhlemann Anne-Catrin, Shenhav Liat, Korem Tal
Abstract excerpt
Sequencing-based approaches for the analysis of microbial communities are susceptible to contamination, which could mask biological signals or generate artifactual ones. Methods for in silico decontamination using controls are routinely used, but do not make optimal use of information shared across samples and cannot handle taxa that only partially originate in contamination or leakage of biological material into...
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