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Sample GSM1505172 Query DataSets for GSM1505172
Status Public on Sep 17, 2014
Title VAT_89
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 31
bmi: 44.205
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 5822791018_R03C01
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 0.592612898
cg00001583 0.091174429
cg00002028 0.091331402
cg00002719 0.084086044
cg00002837 0.320218777
cg00003202 0.022777395
cg00003287 0.264436008
cg00007036 0.929706297
cg00007898 0.053764622
cg00008004 0.174455403
cg00008647 0.120402936
cg00009292 0.122816473
cg00011717 0.884750511
cg00014168 0.588300938
cg00015286 0.665060472
cg00016238 0.889553515
cg00017221 0.133211538
cg00017437 0.075057785
cg00021123 0.622023359
cg00021576 0.099904182

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505172_5822791018_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505172_5822791018_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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