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Sample GSM1505202 Query DataSets for GSM1505202
Status Public on Sep 17, 2014
Title VAT_98
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 54
bmi: 38.552
tissue: visceral adipose tissue
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified from liver samples using the AllPrep DNA/RNA/Protein Mini kit (QIAgen, Hilden, Germany) according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450K Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using HiScan Reader using standard recommended Illumina scanner setting
Description 5822943014_R06C02
Data processing SWAN Normalization and M-value transformation, using minfi (v.1.8.9) and R (v.3.0.2)
Submission date Sep 16, 2014
Last update date Sep 17, 2014
Contact name Lude Franke
Organization name UMCG
Department Genetics
Street address Hanzeplein 1
City Groningen
State/province Please Select
ZIP/Postal code 9713 GZ
Country Netherlands
Platform ID GPL13534
Series (2)
GSE61453 Epigenome analysis of the human visceral adipose tissue
GSE61454 DNA methylation from severely obese samples in liver, muscle, visceral adipose tissue and subcutaneous adipose samples

Data table header descriptions
VALUE SWAN Normalized M-value

Data table
cg00001349 0.677422744
cg00001583 0.087203807
cg00002028 0.066628919
cg00002719 0.089277071
cg00002837 0.379861899
cg00003202 0.031489842
cg00003287 0.185256178
cg00007036 0.946024999
cg00007898 0.040732512
cg00008004 0.164201118
cg00008647 0.10920328
cg00009292 0.147617679
cg00011717 0.917362295
cg00014168 0.703379542
cg00015286 0.769134522
cg00016238 0.84449564
cg00017221 0.099450157
cg00017437 0.110713336
cg00021123 0.819578305
cg00021576 0.075845518

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505202_5822943014_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505202_5822943014_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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