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Sample GSM1505167 Query DataSets for GSM1505167
Status Public on Sep 17, 2014
Title VAT_66
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 29
bmi: 42.659
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 5822791013_R04C01
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 0.728256974
cg00001583 0.08428413
cg00002028 0.05145908
cg00002719 0.166308278
cg00002837 0.309959641
cg00003202 0.03958727
cg00003287 0.246163352
cg00007036 0.911523304
cg00007898 0.060797308
cg00008004 0.173524834
cg00008647 0.099467287
cg00009292 0.13415974
cg00011717 0.883954061
cg00014168 0.601671245
cg00015286 0.756648183
cg00016238 0.874859237
cg00017221 0.081439869
cg00017437 0.082926827
cg00021123 0.612496018
cg00021576 0.095253226

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505167_5822791013_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505167_5822791013_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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