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Sample GSM1505144 Query DataSets for GSM1505144
Status Public on Sep 17, 2014
Title VAT_48
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 33
bmi: 42.588
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_R01C02
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 0.869268979
cg00001583 0.078792144
cg00002028 0.096198183
cg00002719 0.094743466
cg00002837 0.339246214
cg00003202 0.034675589
cg00003287 0.23792724
cg00007036 0.922718109
cg00007898 0.0396719
cg00008004 0.10157488
cg00008647 0.111990504
cg00009292 0.131858792
cg00011717 0.905253677
cg00014168 0.676596132
cg00015286 0.71302242
cg00016238 0.785368042
cg00017221 0.111063988
cg00017437 0.076677739
cg00021123 0.69166702
cg00021576 0.064715957

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505144_5822791001_R01C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1505144_5822791001_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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