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E-GEOD-57962 - DNA methylation variability in a pilot study group with ischemic stroke

Status
Released on 27 May 2014, last updated on 13 August 2014
Organism
Homo sapiens
Samples (8)
Protocols (4)
Description
Elevated plasma homocysteine is an independent risk factor for cardiovascular disease and stroke, however the etiology remains poorly understood. Elevated homocysteine is known to inhibit methyltransferases including DNA methyltransferases, but no methylome-wide analysis of elevated homocysteine has been reported. Peripheral blood genomic DNA methylation in 8 Singaporean-Chinese ischemic stroke patients (4 male, 4 female) with varying homocysteine titer and hypertensive status were profiled using methyl-CpG binding domain (MBD) protein-enriched genome sequencing (MBD-seq) on Illumina Genome Analyzer IIx. A methylome wide screen was undertaken for gender, total plasma homocysteine, hypertension and age. The data show considerable variability within the small cohort, including at genes which are related to one carbon metabolism and cardiovascular disease. Peripheral blood genomic DNA methylation in 8 Singaporean-Chinese ischemic stroke patients (4 male, 4 female) was profiled using methyl-CpG binding domain (MBD) protein-enriched genome sequencing (MBD-seq) on Illumina Genome Analyzer IIx. Methylation parrterns were correlated with homocysteine levels, lypertensive status, gender and age.
Experiment type
methylation profiling by high throughput sequencing 
Contacts
Mark D Ziemann <mark.ziemann@gmail.com>, Antony Kaspi, Assam El-Osta, Deidre A De Silva, Harikrishnan KN, Kyaw T Moe, Mark Ziemann
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-57962.idf.txt
Sample and data relationshipE-GEOD-57962.sdrf.txt
Additional data (1)E-GEOD-57962.additional.1.zip
Links