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Sample GSM1505190 Query DataSets for GSM1505190
Status Public on Sep 17, 2014
Title VAT_61
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 47
bmi: 37.300
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 5822791029_R04C02
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 0.764563011
cg00001583 0.1009309
cg00002028 0.049380792
cg00002719 0.069075639
cg00002837 0.406075178
cg00003202 0.02141043
cg00003287 0.199085708
cg00007036 0.953006157
cg00007898 0.030246852
cg00008004 0.143438478
cg00008647 0.101283787
cg00009292 0.170646706
cg00011717 0.926187484
cg00014168 0.615044569
cg00015286 0.772332617
cg00016238 0.884846953
cg00017221 0.064005422
cg00017437 0.076781233
cg00021123 0.639265904
cg00021576 0.07080991

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505190_5822791029_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505190_5822791029_R04C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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