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Sample GSM1505159 Query DataSets for GSM1505159
Status Public on Sep 17, 2014
Title VAT_59
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 48
bmi: 35.686
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 5822791011_R03C01
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 0.656889472
cg00001583 0.084913934
cg00002028 0.074857953
cg00002719 0.168012181
cg00002837 0.302936064
cg00003202 0.027177933
cg00003287 0.247977031
cg00007036 0.921041833
cg00007898 0.038222307
cg00008004 0.107572386
cg00008647 0.115698848
cg00009292 0.13226311
cg00011717 0.887323097
cg00014168 0.570912891
cg00015286 0.710182754
cg00016238 0.743804575
cg00017221 0.096782797
cg00017437 0.0623922
cg00021123 0.759615382
cg00021576 0.094321458

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505159_5822791011_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505159_5822791011_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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