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Sample GSM1505212 Query DataSets for GSM1505212
Status Public on Sep 17, 2014
Title VAT_103
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 28
bmi: 68.679
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 5822943026_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 0.869946254
cg00001583 0.088943675
cg00002028 0.075683161
cg00002719 0.193606167
cg00002837 0.354016498
cg00003202 0.035991083
cg00003287 0.192743869
cg00007036 0.961536017
cg00007898 0.057756803
cg00008004 0.18575371
cg00008647 0.069058458
cg00009292 0.149614329
cg00011717 0.863227682
cg00014168 0.64608598
cg00015286 0.701214776
cg00016238 0.755677676
cg00017221 0.115021837
cg00017437 0.038802105
cg00021123 0.747568186
cg00021576 0.068284769

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505212_5822943026_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1505212_5822943026_R01C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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