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Series GSE39775 Query DataSets for GSE39775
Status Public on Mar 28, 2013
Title Examination of four human tissue samples by MethylC-seq
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Summary 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.
Overall design 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)
Contributor(s) Schroeder DI, LaSalle JM
Citation(s) 23530188
Submission date Jul 31, 2012
Last update date May 15, 2019
Contact name Janine LaSalle
Organization name UC Davis
Street address Medical Microbiology and Immunology
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
Platforms (2)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (7)
GSM978964 placenta 1 (technical replicate 1) - MethylC-seq
GSM978965 placenta 1 (technical replicate 2) - MethylC-seq
GSM978966 kidney - MethylC-seq
This SubSeries is part of SuperSeries:
GSE39777 Comparison of DNA methylation in human tissues
BioProject PRJNA171703
SRA SRP014634

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Supplementary file Size Download File type/resource
GSE39775_RAW.tar 669.3 Mb (http)(custom) TAR (of BED, TAR)
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Raw data are available in SRA
Processed data provided as supplementary file

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