@article{Jühling01022016,
author = {Jühling, Frank and Kretzmer, Helene and Bernhart, Stephan H. and Otto, Christian and Stadler, Peter F. and Hoffmann, Steve}, 
title = {metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data},
volume = {26}, 
number = {2}, 
pages = {256-262}, 
year = {2016}, 
doi = {10.1101/gr.196394.115}, 
abstract ={The detection of differentially methylated regions (DMRs) is a necessary prerequisite for characterizing different epigenetic states. We present a novel program, metilene, to identify DMRs within whole-genome and targeted data with unrivaled specificity and sensitivity. A binary segmentation algorithm combined with a two-dimensional statistical test allows the detection of DMRs in large methylation experiments with multiple groups of samples in minutes rather than days using off-the-shelf hardware. metilene outperforms other state-of-the-art tools for low coverage data and can estimate missing data. Hence, metilene is a versatile tool to study the effect of epigenetic modifications in differentiation/development, tumorigenesis, and systems biology on a global, genome-wide level. Whether in the framework of international consortia with dozens of samples per group, or even without biological replicates, it produces highly significant and reliable results.}, 
URL = {http://genome.cshlp.org/content/26/2/256.abstract}, 
eprint = {http://genome.cshlp.org/content/26/2/256.full.pdf+html}, 
journal = {Genome Research} 
}