title: MethylMeter(®): bisulfite-free quantitative and sensitive DNA methylation profiling and mutation detection in FFPE samples.
abstract: Development of a sensitive method for DNA methylation profiling and associated mutation detection in clinical samples.
  
  
  
  Formalin-fixed and paraffin-embedded tumors received by clinical laboratories often contain insufficient DNA for analysis with bisulfite or methylation sensitive restriction enzymes-based methods. To increase sensitivity, methyl-CpG DNA capture and Coupled Abscription PCR Signaling detection were combined in a new assay, MethylMeter(®). Gliomas were analyzed for MGMT methylation, glioma CpG island methylator phenotype and IDH1 R132H.
  
  
  
  MethylMeter had 100% assay success rate measuring all five biomarkers in formalin-fixed and paraffin-embedded tissue. MGMT methylation results were supported by survival and mRNA expression data.
  
  
  
  MethylMeter is a sensitive and quantitative method for multitarget DNA methylation profiling and associated mutation detection. The MethylMeter-based GliomaSTRAT assay measures methylation of four targets and one mutation to simultaneously grade gliomas and predict their response to temozolomide. This information is clinically valuable in management of gliomas.
authors.affiliation: Ribomed Biotechnologies Inc., 3469 Kurtz St., San Diego, CA 92110, USA.
authors.forename: David
authors.initials: D
authors.lastname: McCarthy
authors.affiliation: Molecular Diagnostics, Health & Environment Department, Austrian Institute of Technology, Muthgasse 11, 1190 Vienna, Austria.
authors.forename: Walter
authors.initials: W
authors.lastname: Pulverer
authors.affiliation: Molecular Diagnostics, Health & Environment Department, Austrian Institute of Technology, Muthgasse 11, 1190 Vienna, Austria.
authors.forename: Andreas
authors.initials: A
authors.lastname: Weinhaeusel
authors.affiliation: Tocagen Inc., 3030 Bunker Hill Street, Suite 230; San Diego, CA 92109, USA.
authors.forename: Oscar R
authors.initials: OR
authors.lastname: Diago
authors.affiliation: Tocagen Inc., 3030 Bunker Hill Street, Suite 230; San Diego, CA 92109, USA.
authors.forename: Daniel J
authors.initials: DJ
authors.lastname: Hogan
authors.affiliation: Tocagen Inc., 3030 Bunker Hill Street, Suite 230; San Diego, CA 92109, USA.
authors.forename: Derek
authors.initials: D
authors.lastname: Ostertag
authors.affiliation: Ribomed Biotechnologies Inc., 3469 Kurtz St., San Diego, CA 92110, USA.
authors.forename: Michelle M
authors.initials: MM
authors.lastname: Hanna
mesh_terms: D001932:Brain Neoplasms / Q000235:genetics* / Q000473:pathology; D018899:CpG Islands; D056915:DNA Copy Number Variations; D019175:DNA Methylation; D015254:DNA Modification Methylases / Q000235:genetics / Q000378:metabolism; D004252:DNA Mutational Analysis; D045643:DNA Repair Enzymes / Q000235:genetics / Q000378:metabolism; D005404:Fixatives / Q000737:chemistry; D005557:Formaldehyde / Q000737:chemistry; D005910:Glioma / Q000235:genetics* / Q000473:pathology; D006801:Humans; D007521:Isocitrate Dehydrogenase / Q000235:genetics; D015335:Molecular Probes / Q000737:chemistry; D009693:Nucleic Acid Hybridization; D016612:Paraffin Embedding; D012313:RNA / Q000737:chemistry; D016707:Tissue Fixation; D025521:Tumor Suppressor Proteins / Q000235:genetics / Q000378:metabolism
chemical_list: D005404:Fixatives; D015335:Molecular Probes; D025521:Tumor Suppressor Proteins; D005557:Formaldehyde; D012313:RNA; D007521:Isocitrate Dehydrogenase; C543588:IDH1 protein, human; D015254:DNA Modification Methylases; C515491:MGMT protein, human; D045643:DNA Repair Enzymes
keywords: CIMP; DNA methylation; IDH1 mutation; MGMT; brain cancer; glioma