TY - JOUR T1 - BoostMe accurately predicts DNA methylation values in whole-genome bisulfite sequencing of multiple human tissues JF - bioRxiv DO - 10.1101/207506 SP - 207506 AU - Luli S. Zou AU - Michael R. Erdos AU - D. Leland Taylor AU - Peter S. Chines AU - Arushi Varshney AU - The McDonnell Genome Institute AU - Stephen C. J. Parker AU - Francis S. Collins AU - John P. Didion Y1 - 2018/01/01 UR - http://biorxiv.org/content/early/2018/01/12/207506.abstract N2 - Bisulfite sequencing is widely employed to study the role of DNA methylation in disease; however, the data suffer from biases due to coverage depth variability. Here we describe BoostMe, a method for imputing low quality DNA methylation estimates within whole-genome bisulfite sequencing (WGBS) data. BoostMe uses a gradient boosting algorithm, XGBoost, and leverages information from multiple samples for prediction. We find that BoostMe outperforms existing algorithms in speed and accuracy when applied to WGBS of human tissues. We also show that imputation improves concordance between WGBS and the MethylationEPIC array at low WGBS depth, suggesting improved WGBS accuracy after imputation. ER -