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Sample GSM1505146 Query DataSets for GSM1505146
Status Public on Sep 17, 2014
Title VAT_37
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 38
bmi: 45.089
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 5822791001_R06C01
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 0.802378861
cg00001583 0.10525719
cg00002028 0.062470438
cg00002719 0.122036955
cg00002837 0.320892585
cg00003202 0.023176426
cg00003287 0.229960535
cg00007036 0.946418362
cg00007898 0.056473306
cg00008004 0.145413766
cg00008647 0.174459874
cg00009292 0.150396135
cg00011717 0.918957954
cg00014168 0.772360279
cg00015286 0.757478492
cg00016238 0.757276464
cg00017221 0.104950676
cg00017437 0.054332274
cg00021123 0.768752044
cg00021576 0.085809104

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505146_5822791001_R06C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505146_5822791001_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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