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Sample GSM1505176 Query DataSets for GSM1505176
Status Public on Sep 17, 2014
Title VAT_73
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 42
bmi: 50.058
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 5822791019_R04C01
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 0.668221337
cg00001583 0.07974744
cg00002028 0.056231664
cg00002719 0.171943127
cg00002837 0.330474024
cg00003202 0.032140528
cg00003287 0.234387673
cg00007036 0.944346684
cg00007898 0.044579313
cg00008004 0.132381015
cg00008647 0.06465414
cg00009292 0.147674325
cg00011717 0.898221624
cg00014168 0.674776121
cg00015286 0.823262096
cg00016238 0.798905846
cg00017221 0.108534677
cg00017437 0.057367567
cg00021123 0.73533853
cg00021576 0.05617819

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505176_5822791019_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505176_5822791019_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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