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Sample GSM1505204 Query DataSets for GSM1505204
Status Public on Sep 17, 2014
Title VAT_112
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 47
bmi: 35.907
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 5822943015_R03C02
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 0.732479727
cg00001583 0.124313472
cg00002028 0.078181169
cg00002719 0.121596081
cg00002837 0.279504886
cg00003202 0.036760573
cg00003287 0.277365014
cg00007036 0.938054707
cg00007898 0.033629768
cg00008004 0.097744498
cg00008647 0.118009631
cg00009292 0.133627336
cg00011717 0.894003828
cg00014168 0.636509462
cg00015286 0.701328445
cg00016238 0.699707659
cg00017221 0.098216423
cg00017437 0.091745891
cg00021123 0.737496667
cg00021576 0.07738958

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505204_5822943015_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505204_5822943015_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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