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Sample GSM1505185 Query DataSets for GSM1505185
Status Public on Sep 17, 2014
Title VAT_113
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 45
bmi: 37.532
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_R03C01
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 0.905236261
cg00001583 0.068368824
cg00002028 0.074282323
cg00002719 0.113736048
cg00002837 0.34642773
cg00003202 0.029126926
cg00003287 0.286213148
cg00007036 0.965668385
cg00007898 0.051545511
cg00008004 0.09209909
cg00008647 0.120500682
cg00009292 0.145426102
cg00011717 0.95464606
cg00014168 0.824830866
cg00015286 0.800360241
cg00016238 0.640095298
cg00017221 0.100113124
cg00017437 0.064606928
cg00021123 0.801374653
cg00021576 0.065967698

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505185_5822791027_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505185_5822791027_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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