Genomics

Dataset Information

304

Examination of four human tissue samples by MethylC-seq


ABSTRACT: As genome-scale DNA methylation sequencing technologies have improved it has become apparent that tissue-specific methylation can occur not only at promoters, enhancers, and CpG islands but also over larger genomic regions. In most human tissues, the vast majority of the genome is highly methylated (>70%). However, genomic sequencing of bisulfite-treated DNA (MethylC-seq) has revealed large partially methylated domains (PMDs) in some human cell lines. However, to date only cultured cells and some cancers have shown evidence for PMDs, suggesting that PMDs may not be observed in normal human tissues. Here we performed MethylC-seq in a set of human tissues and found that full-term human placenta shows clear evidence of PMDs. Examination of four human tissue samples by MethylC-seq, with one tissue (placenta) having a technical replicate (taken from same placenta) and two additional biological replicates (from different placentas)

ORGANISM(S): Homo sapiens  

SUBMITTER: Diane Irene Schroeder   Diane I Schroeder  Janine M LaSalle 

PROVIDER: E-GEOD-39775 | ArrayExpress | 2013-03-28

SECONDARY ACCESSION(S): SRP014634GSE39775PRJNA171703

REPOSITORIES: GEO, ArrayExpress, ENA

altmetric image

Publications

The human placenta methylome.

Schroeder Diane I DI   Blair John D JD   Lott Paul P   Yu Hung On Ken HO   Hong Danna D   Crary Florence F   Ashwood Paul P   Walker Cheryl C   Korf Ian I   Robinson Wendy P WP   LaSalle Janine M JM  

Proceedings of the National Academy of Sciences of the United States of America 20130325 15


Tissue-specific DNA methylation is found at promoters, enhancers, and CpG islands but also over larger genomic regions. In most human tissues, the vast majority of the genome is highly methylated (>70%). Recently, sequencing of bisulfite-treated DNA (MethylC-seq) has revealed large partially methylated domains (PMDs) in some human cell lines. PMDs cover up to 40% of the genome and are associated with gene repression and inactive chromatin marks. However, to date, only cultured cells and cancers  ...[more]

Similar Datasets

2015-08-05 | E-GEOD-63330 | ArrayExpress
2011-06-23 | E-GEOD-25930 | ArrayExpress
2012-03-27 | E-GEOD-32268 | ArrayExpress
2013-03-28 | E-GEOD-39777 | ArrayExpress
2013-03-28 | E-GEOD-39776 | ArrayExpress
2014-11-17 | E-GEOD-46030 | ArrayExpress
2013-03-29 | E-MTAB-1508 | ArrayExpress
2011-06-23 | GSE25930 | GEO
2013-05-02 | E-GEOD-46572 | ArrayExpress
2013-05-01 | E-GEOD-41379 | ArrayExpress