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Sample GSM796588 Query DataSets for GSM796588
Status Public on Jun 01, 2013
Title Crohn's disease colon mucosa Kelle25
Sample type genomic
Source name colon mucosa Kelle25
Organism Homo sapiens
Characteristics gender: Male
age (y): 14
tissue: Colon mucosa
disease state: Crohn's disease
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted and purified from colon mucosa samples using QIAamp DNA Mini Kit (Qiagen, Valencia, CA) starting at step 5 of the Tissue Protocol following bead beating and Qiagen TissueLyser treatment. All samples were quality tested with PicoGreen prior to proceeding with the microarrays.
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 Crohn's disease colon mucosa sample
Data processing GenomeStudio software version 2010.3.0.30128
Submission date Sep 15, 2011
Last update date Jun 01, 2013
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)
GSE32146 DNA methylation in a discovery cohort of colon mucosa samples 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 0.39515 0
cg00000108 0.8969 0
cg00000109 0.85914 0
cg00000165 0.15211 0
cg00000236 0.84125 0
cg00000289 0.63953 0
cg00000292 0.62211 0
cg00000321 null 0
cg00000363 0.22906 0
cg00000622 0.02831 0
cg00000658 0.77155 0
cg00000714 0.16758 0
cg00000721 0.88585 0
cg00000734 0.09126 0
cg00000769 0.07292 0
cg00000807 0.79544 0
cg00000884 0.84627 0
cg00000905 0.10427 0
cg00000924 0.46932 0
cg00000948 0.8504 0

Total number of rows: 485577

Table truncated, full table size 9916 Kbytes.

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

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