@article{d8311f368f4d4c9b93d72f3fe64358ca,
title = "MethMarker: User-friendly design and optimization of gene-specific DNA methylation assays",
abstract = "DNA methylation is a key mechanism of epigenetic regulation that is frequently altered in diseases such as cancer. To confirm the biological or clinical relevance of such changes, gene-specific DNA methylation changes need to be validated in multiple samples. We have developed the MethMarker http://methmarker.mpi-inf.mpg.de/ software to help design robust and cost-efficient DNA methylation assays for six widely used methods. Furthermore, MethMarker implements a bioinformatic workflow for transforming disease-specific differentially methylated genomic regions into robust clinical biomarkers.",
author = "Peter Sch{\"u}ffler and Thomas Mikeska and Andreas Waha and Thomas Lengauer and Christoph Bock",
note = "Funding Information: We would like to thank J{\"o}rn Walter and Martina Paulsen for interesting discussions, David Thomas for providing EpiTYPER test data, Joachim B{\"u}ch as well as Oliver Sch{\"o}nleben for technical support, and Chelsee Hewitt for critical reading of the manuscript. TM thanks Alexander Dobrovic for his continued support. Furthermore, we acknowledge advice by several researchers involved in the EU Network of Excellence 'The Epigenome', which helped us devise the expert rules for assay design and validation. This work was partially funded by the European Union through the CANCER-DIP project (HEALTH-F2-2007-200620) and by the German Federal Ministry of Education and Research through the NGFN-Plus Brain Tumor Network (01GS08187).",
year = "2009",
month = oct,
day = "5",
doi = "10.1186/gb-2009-10-10-r105",
language = "English",
volume = "10",
journal = "Genome Biology",
issn = "1474-7596",
publisher = "BioMed Central Ltd.",
number = "10",
}
