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Sample GSM1505186 Query DataSets for GSM1505186
Status Public on Sep 17, 2014
Title VAT_93
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 37
bmi: 47.331
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 5822791027_R05C01
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 0.90947503
cg00001583 0.068649428
cg00002028 0.057433955
cg00002719 0.14285281
cg00002837 0.332831194
cg00003202 0.061033853
cg00003287 0.258986395
cg00007036 0.943847205
cg00007898 0.084565456
cg00008004 0.137288149
cg00008647 0.065437379
cg00009292 0.115698848
cg00011717 0.959501965
cg00014168 0.876281338
cg00015286 0.852492618
cg00016238 0.780912363
cg00017221 0.103844716
cg00017437 0.069827918
cg00021123 0.785565119
cg00021576 0.082672766

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505186_5822791027_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505186_5822791027_R05C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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