MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays |
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| Authors: | Peter Schüffler Thomas Mikeska Andreas Waha Thomas Lengauer and Christoph Bock |
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| Institution: | 1.Max-Planck-Institut für Informatik, Campus E1.4, 66123 Saarbrücken, Germany;2.Molecular Pathology Research and Development Laboratory, Department of Pathology, Peter MacCallum Cancer Centre, A''Beckett Street, Melbourne, Victoria 8006, Australia;3.Department of Neuropathology, University of Bonn Medical Centre, Sigmund-Freud-Straße, 53105 Bonn, Germany |
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| 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 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. |
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