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Sample GSM1505187 Query DataSets for GSM1505187
Status Public on Sep 17, 2014
Title VAT_110
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 41
bmi: 34.809
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 5822791027_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 0.826253278
cg00001583 0.079497002
cg00002028 0.060744783
cg00002719 0.111485118
cg00002837 0.327943517
cg00003202 0.023044714
cg00003287 0.204825253
cg00007036 0.940871023
cg00007898 0.057703829
cg00008004 0.141264605
cg00008647 0.127052425
cg00009292 0.123531732
cg00011717 0.946961859
cg00014168 0.87773696
cg00015286 0.842760001
cg00016238 0.727223373
cg00017221 0.116049933
cg00017437 0.090872242
cg00021123 0.822232811
cg00021576 0.06574587

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505187_5822791027_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505187_5822791027_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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