Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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The tissue is the issue: Improved methylome analysis from paraffin-embedded tissues by application of the HOPE-technique

ABSTRACT: Genome wide DNA methylation profiling of DNA samples obtained from normal lung tissue and lung carcinoma, either fixed by formalin (FFPE), HOPE (paraffin embedded) or cryo-preserved. Illumina's HumanMethylation450 BeadChip was used to obtain DNA methylation profiles across approximately 450.000 CpGs. Bisulphite converted DNA from the 36 samples were hybridized to the Illumina HumanMethylation450 Beadchip.

ORGANISM(S): Homo sapiens

SUBMITTER: Ole Ammerpohl 

PROVIDER: E-GEOD-51077 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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The tissue is the issue: improved methylome analysis from paraffin-embedded tissues by application of the HOPE technique.

Marwitz Sebastian S   Kolarova Julia J   Reck Martin M   Reinmuth Niels N   Kugler Christian C   Schädlich Ines I   Haake Andrea A   Zabel Peter P   Vollmer Ekkehard E   Siebert Reiner R   Goldmann Torsten T   Ammerpohl Ole O  

Laboratory investigation; a journal of technical methods and pathology 20140616 8

Alterations in the DNA methylome are characteristic for numerous diseases and a typical hallmark of cancer. Therefore, DNA methylation is currently under investigation in research labs and has also entered diagnostics. Recently, protocols like the BeadChip technology have become commercially available to study DNA methylation in an array format and semiquantitative fashion. However, it is known that fixation of the sample material with formalin prior to BeadChip analysis can affect the results.  ...[more]

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