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Sample GSM1505197 Query DataSets for GSM1505197
Status Public on Sep 17, 2014
Title VAT_58
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 52
bmi: 69.814
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 5822943002_R06C02
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 0.718105186
cg00001583 0.093964913
cg00002028 0.076372289
cg00002719 0.168940827
cg00002837 0.331451731
cg00003202 0.032527133
cg00003287 0.209675248
cg00007036 0.967813393
cg00007898 0.038451426
cg00008004 0.134381964
cg00008647 0.101006406
cg00009292 0.140507282
cg00011717 0.930805195
cg00014168 0.723098329
cg00015286 0.578642739
cg00016238 0.831497148
cg00017221 0.08434194
cg00017437 0.061147461
cg00021123 0.808445672
cg00021576 0.088452555

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505197_5822943002_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505197_5822943002_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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