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://...

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Detalles Bibliográficos
Autores principales: Schüffler, Peter, Mikeska, Thomas, Waha, Andreas, Lengauer, Thomas, Bock, Christoph
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2009
Materias:
Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2784320/
https://www.ncbi.nlm.nih.gov/pubmed/19804638
http://dx.doi.org/10.1186/gb-2009-10-10-r105
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author Schüffler, Peter
Mikeska, Thomas
Waha, Andreas
Lengauer, Thomas
Bock, Christoph
author_facet Schüffler, Peter
Mikeska, Thomas
Waha, Andreas
Lengauer, Thomas
Bock, Christoph
author_sort Schüffler, Peter
collection PubMed
description 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.
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spelling pubmed-27843202009-11-27 MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays Schüffler, Peter Mikeska, Thomas Waha, Andreas Lengauer, Thomas Bock, Christoph Genome Biol Software 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. BioMed Central 2009 2009-10-05 /pmc/articles/PMC2784320/ /pubmed/19804638 http://dx.doi.org/10.1186/gb-2009-10-10-r105 Text en Copyright ©2009 Schüffler et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Software
Schüffler, Peter
Mikeska, Thomas
Waha, Andreas
Lengauer, Thomas
Bock, Christoph
MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays
title MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays
title_full MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays
title_fullStr MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays
title_full_unstemmed MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays
title_short MethMarker: user-friendly design and optimization of gene-specific DNA methylation assays
title_sort methmarker: user-friendly design and optimization of gene-specific dna methylation assays
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2784320/
https://www.ncbi.nlm.nih.gov/pubmed/19804638
http://dx.doi.org/10.1186/gb-2009-10-10-r105
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AT wahaandreas methmarkeruserfriendlydesignandoptimizationofgenespecificdnamethylationassays
AT lengauerthomas methmarkeruserfriendlydesignandoptimizationofgenespecificdnamethylationassays
AT bockchristoph methmarkeruserfriendlydesignandoptimizationofgenespecificdnamethylationassays

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