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Sample GSM1505169 Query DataSets for GSM1505169
Status Public on Sep 17, 2014
Title VAT_69
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: 53.487
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 5822791015_R01C01
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 0.661650408
cg00001583 0.113300499
cg00002028 0.077784799
cg00002719 0.102191964
cg00002837 0.356615796
cg00003202 0.038587809
cg00003287 0.310337875
cg00007036 0.914885716
cg00007898 0.049692924
cg00008004 0.08488982
cg00008647 0.076763808
cg00009292 0.14408685
cg00011717 0.904138366
cg00014168 0.697555796
cg00015286 0.713610718
cg00016238 0.776877191
cg00017221 0.08927617
cg00017437 0.069623489
cg00021123 0.718112073
cg00021576 0.072019391

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505169_5822791015_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505169_5822791015_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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