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Sample GSM1505209 Query DataSets for GSM1505209
Status Public on Sep 17, 2014
Title VAT_115
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 54
bmi: 34.647
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 5822943019_R02C01
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 0.698862618
cg00001583 0.095694324
cg00002028 0.090055551
cg00002719 0.088728535
cg00002837 0.336781592
cg00003202 0.056360547
cg00003287 0.234728857
cg00007036 0.947114124
cg00007898 0.04620775
cg00008004 0.151135907
cg00008647 0.118751118
cg00009292 0.121983493
cg00011717 0.913109158
cg00014168 0.710585985
cg00015286 0.699839605
cg00016238 0.81399336
cg00017221 0.093936371
cg00017437 0.074713338
cg00021123 0.76107568
cg00021576 0.105103753

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505209_5822943019_R02C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505209_5822943019_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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