metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data
Telstra (Australia) · Leipzig University · +4 more institutions
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…
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- References
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Authors
6- FJFrank JühlingCorresponding
Telstra (Australia), Leipzig University
- HKHelene Kretzmer
Telstra (Australia), Leipzig University
- SWStephan Wolf
Telstra (Australia), Leipzig University
- COChristian Otto
Telstra (Australia), Leipzig University
- PFPeter F. Stadler
University of Vienna, Santa Fe Institute, Max Planck Institute for Mathematics, Fraunhofer Institute for Cell Therapy and Immunology, Leipzig University
Topics & keywords
- Biology
- Differentially methylated regions
- Epigenetics
- Computational biology
- DNA methylation
- Bisulfite sequencing
- Genome
- Genetics
- Partnerships for the goals