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Sample GSM1505200 Query DataSets for GSM1505200
Status Public on Sep 17, 2014
Title VAT_68
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 49
bmi: 38.372
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_R05C02
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 0.735806606
cg00001583 0.061529242
cg00002028 0.065270631
cg00002719 0.230532764
cg00002837 0.496485556
cg00003202 0.049739807
cg00003287 0.211643643
cg00007036 0.935877714
cg00007898 0.067795183
cg00008004 0.172134633
cg00008647 0.085408948
cg00009292 0.103287432
cg00011717 0.900544234
cg00014168 0.77893363
cg00015286 0.792281486
cg00016238 0.79978813
cg00017221 0.099441704
cg00017437 0.117687513
cg00021123 0.87687012
cg00021576 0.075260611

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505200_5822943014_R05C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1505200_5822943014_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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