Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

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

Json Xml
altmetric image

Publications

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]

Similar Datasets

Methylation profiling The tissue is the issue: Improved methylome analysis from paraffin-embedded tissues by application of the HOPE-technique
2016-08-22 | GSE51077 | GEO
Transcriptomics Predicting genome-wide DNA methylation
2014-11-05 | E-GEOD-62992 | biostudies-arrayexpress
Transcriptomics DNA methylation profiles of liver and placenta technical replicates
2014-02-19 | E-GEOD-52731 | biostudies-arrayexpress
Transcriptomics Analysis of epigenetic changes in F-36P leukemic cells by arsenic disulfide treatment
2016-08-01 | E-GEOD-51196 | biostudies-arrayexpress
Transcriptomics Array-based determination of DNA methylation in children born small for gestational age
2016-07-03 | E-GEOD-47880 | biostudies-arrayexpress
Transcriptomics Mutations in IDH1 are associated with DNA hypermethylation in glioblastomas
2012-06-10 | E-GEOD-32283 | biostudies-arrayexpress
Transcriptomics Correlated DNA methylation clusters in whole blood
2014-03-25 | E-GEOD-54882 | biostudies-arrayexpress
Methylation profiling A low DNA methylation epigenotype in squamous cell lung cancer and its association with idiopathic pulmonary fibrosis and poorer prognosis
2019-10-26 | GSE121849 | GEO
Transcriptomics Epigenome analysis of control and KLF4-overexpressing podocytes
2014-11-01 | E-GEOD-41689 | biostudies-arrayexpress
Transcriptomics DNA methylation of matched primary-metastases medulloblastomas
2015-04-01 | E-GEOD-63669 | biostudies-arrayexpress