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Sample GSM1505157 Query DataSets for GSM1505157
Status Public on Sep 17, 2014
Title VAT_131
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 54
bmi: 41.402
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 5822791008_R05C01
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 0.74555334
cg00001583 0.104916727
cg00002028 0.055377065
cg00002719 0.147412836
cg00002837 0.368329508
cg00003202 0.02193541
cg00003287 0.238911048
cg00007036 0.924499081
cg00007898 0.064136845
cg00008004 0.158671933
cg00008647 0.131228163
cg00009292 0.12518143
cg00011717 0.900633892
cg00014168 0.717406853
cg00015286 0.843116411
cg00016238 0.860435131
cg00017221 0.088718545
cg00017437 0.093128593
cg00021123 0.772453624
cg00021576 0.07387692

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505157_5822791008_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505157_5822791008_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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