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Sample GSM1505184 Query DataSets for GSM1505184
Status Public on Sep 17, 2014
Title VAT_124
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 42
bmi: 71.121
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_R02C02
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 0.871872772
cg00001583 0.077207894
cg00002028 0.097127838
cg00002719 0.083300415
cg00002837 0.326816899
cg00003202 0.029734265
cg00003287 0.198021055
cg00007036 0.961320957
cg00007898 0.05946671
cg00008004 0.143028886
cg00008647 0.119125347
cg00009292 0.123136087
cg00011717 0.940642031
cg00014168 0.84046149
cg00015286 0.875806092
cg00016238 0.801065535
cg00017221 0.056645829
cg00017437 0.089580058
cg00021123 0.768599482
cg00021576 0.078612713

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505184_5822791027_R02C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505184_5822791027_R02C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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