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Sample GSM796668 Query DataSets for GSM796668
Status Public on Apr 05, 2012
Title normal peripheral blood 13
Sample type genomic
Source name peripheral blood 13
Organism Homo sapiens
Characteristics gender: Male
age (y): 14
tissue: Peripheral Blood
disease state: normal
twin: NA
Extracted molecule genomic DNA
Extraction protocol For twin samples, genomic DNA was extracted and purified from peripheral blood samples using the Maxwell® 16 system from Promega with the Blood DNA purification kit. In order to increase the concentration of the extracted DNA, Milipore microcon filters were used. For other samples, either Gentra Puregene (Qiagen) for whole blood according to manufacturers recommendation, or the QuiAmp DNA mini kit (Qiagen) on isolated peripheral blood mononuclear cells (PBMCs) was used. BD Vacutainer® CPT™ Cell Preparation Tube with Sodium Citrate was used in the later case to isolate PBMCs from PBL.
Label Cy5 and Cy3
Label protocol Standard Illumina protocol
Hybridization protocol Bisulfite converted DNA was amplified, fragmented and hybridized to the Illumina Infinium HumanMethylation450 BeadChip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner settings
Description Normal peripheral blood sample
Data processing GenomeStudio software version 2010.3.0.30128
Submission date Sep 15, 2011
Last update date Apr 05, 2012
Contact name R. Alan Harris
Organization name Baylor College of Medicine
Department Molecular and Human Genetics
Street address 1 Baylor Plaza
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
Platform ID GPL13534
Series (2)
GSE32148 DNA methylation in peripheral blood from individuals with Crohns' disease or ulcerative colitis and normal controls
GSE32149 DNA methylation in Crohns' disease and ulcerative colitis

Data table header descriptions
VALUE Average beta values were normalized to internal array controls as implemented in GenomeStudio
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00000029 0.51203 0
cg00000108 0.92284 0
cg00000109 0.88565 0
cg00000165 0.2075 0
cg00000236 0.73487 0
cg00000289 0.67074 0
cg00000292 0.82428 0
cg00000321 0.28094 0
cg00000363 0.34207 0
cg00000622 0.01329 0
cg00000658 0.82354 0
cg00000714 0.20652 0
cg00000721 0.89503 0
cg00000734 0.09424 0
cg00000769 0.05493 0
cg00000807 0.83477 0
cg00000884 0.83894 0
cg00000905 0.11296 0
cg00000924 0.45553 0
cg00000948 0.85886 0

Total number of rows: 485577

Table truncated, full table size 9917 Kbytes.

Supplementary data files not provided
Processed data included within Sample table
Processed data are available on Series record

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