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Sample GSM1505213 Query DataSets for GSM1505213
Status Public on Sep 17, 2014
Title VAT_100
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 32
bmi: 51.172
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 5822943028_R05C02
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 0.647908335
cg00001583 0.08734384
cg00002028 0.06215421
cg00002719 0.20772641
cg00002837 0.36630927
cg00003202 0.046744274
cg00003287 0.220659957
cg00007036 0.952483021
cg00007898 0.043364974
cg00008004 0.163865634
cg00008647 0.09540263
cg00009292 0.126971429
cg00011717 0.880498148
cg00014168 0.652135951
cg00015286 0.805416488
cg00016238 0.769777545
cg00017221 0.06693077
cg00017437 0.060609166
cg00021123 0.797606697
cg00021576 0.078432026

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505213_5822943028_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505213_5822943028_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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