MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays.
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.
Schüffler
Peter
P
Max-Planck-Institut für Informatik, Saarbrücken, Germany. schueffi@mpi-inf.mpg.de
Mikeska
Thomas
T
Waha
Andreas
A
Lengauer
Thomas
T
Bock
Christoph
C
D001681:Biological Assay / Q000379:methods*; D015415:Biomarkers / Q000378:metabolism; D019175:DNA Methylation / Q000235:genetics*; D015254:DNA Modification Methylases / Q000235:genetics; D045643:DNA Repair Enzymes / Q000235:genetics; D006801:Humans; D015203:Reproducibility of Results; D017422:Sequence Analysis, DNA; D012984:Software; D012985:Software Design; D025521:Tumor Suppressor Proteins / Q000235:genetics
D015415:Biomarkers; D025521:Tumor Suppressor Proteins; D015254:DNA Modification Methylases; C515491:MGMT protein, human; D045643:DNA Repair Enzymes