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Expanding epigenomics to archived FFPE tissues: An evaluation of DNA repair methodologies

ABSTRACT: A study to evaluate techniques for repairing DNA from formalin-fixed paraffin-embedded (FFPE) tissue samples by direct comparison of FFPE DNA repair methods prior to analysis on genome-wide methylation array to matched fresh frozen (FF) tissues. Formalin-fixed paraffin-embedded tissue from three colon adenocarcinoma samples were subjected to different FFPE-oriented DNA repair approaches and sequences, then compared with corresponding fresh frozen tissues. All samples were hybridized to the Illumina Infinium 450k Human Methylation BeadChip.

ORGANISM(S): Homo sapiens

SUBMITTER: Steven Eschrich 

PROVIDER: E-GEOD-59038 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Expanding epigenomics to archived FFPE tissues: an evaluation of DNA repair methodologies.

Siegel Erin M EM   Berglund Anders E AE   Riggs Bridget M BM   Eschrich Steven A SA   Putney Ryan M RM   Ajidahun Abidemi O AO   Coppola Domenico D   Shibata David D  

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology 20141201 12

<h4>Background</h4>Epigenome-wide association studies are emerging in the field of cancer epidemiology with the rapid development of large-scale methylation array platforms. Until recently, these methods were only valid for DNA from flash frozen (FF) tissues. Novel techniques for repairing DNA from formalin-fixed paraffin-embedded (FFPE) tissues have emerged; however, a direct comparison of FFPE DNA repair methods before analysis on genome-wide methylation array to matched FF tissues has not bee  ...[more]

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