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Sample GSM1291186 Query DataSets for GSM1291186
Status Public on Dec 18, 2013
Title ulcerative colitis colon mucosa 509
Sample type genomic
Source name colon mucosa 509, after treatment with 6-mercaptopurine and mesalamine
Organism Homo sapiens
Characteristics gender: Male
age (y): 13
tissue: Colon mucosa
disease state: ulcerative colitis
treatment: 6-mercaptopurine and mesalamine
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 Ulcerative colitis treated with 6-mercaptopurine and mesalamine colon mucosa sample.
Data processing GenomeStudio software version 2010.3.0.30128
Submission date Dec 17, 2013
Last update date Dec 18, 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 0.37152 0.00000
cg00000108 0.94023 0.00000
cg00000109 0.87971 0.00000
cg00000165 0.18729 0.00000
cg00000236 0.85376 0.00000
cg00000289 0.72611 0.00000
cg00000292 0.66107 0.00000
cg00000321 0.30892 0.00000
cg00000363 0.28029 0.00000
cg00000622 0.01643 0.00000
cg00000658 0.81453 0.00000
cg00000714 0.15786 0.00000
cg00000721 0.92389 0.00000
cg00000734 0.07551 0.00000
cg00000769 0.07466 0.00000
cg00000807 0.81104 0.00000
cg00000884 0.86013 0.00000
cg00000905 0.07560 0.00000
cg00000924 0.57522 0.00000
cg00000948 0.88574 0.00000

Total number of rows: 482421

Table truncated, full table size 12709 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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