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Sample GSM1505198 Query DataSets for GSM1505198
Status Public on Sep 17, 2014
Title VAT_86
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 50
bmi: 40.958
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_R01C01
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 0.722322466
cg00001583 0.087941708
cg00002028 0.06453643
cg00002719 0.201155799
cg00002837 0.389016585
cg00003202 0.034137861
cg00003287 0.224938488
cg00007036 0.953552131
cg00007898 0.03679092
cg00008004 0.127969699
cg00008647 0.054919475
cg00009292 0.155060695
cg00011717 0.89550611
cg00014168 0.710126906
cg00015286 0.814863088
cg00016238 0.844672614
cg00017221 0.059812717
cg00017437 0.186181071
cg00021123 0.764257296
cg00021576 0.08255472

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505198_5822943014_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1505198_5822943014_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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