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Sample GSM1505162 Query DataSets for GSM1505162
Status Public on Sep 17, 2014
Title VAT_120
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 39
bmi: 39.520
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 5822791012_R01C01
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 0.611306226
cg00001583 0.098853447
cg00002028 0.087620823
cg00002719 0.183034983
cg00002837 0.437186752
cg00003202 0.031271463
cg00003287 0.167060944
cg00007036 0.951632432
cg00007898 0.054656908
cg00008004 0.14294403
cg00008647 0.148044967
cg00009292 0.136918037
cg00011717 0.892742319
cg00014168 0.698926036
cg00015286 0.74086998
cg00016238 0.735420157
cg00017221 0.06845554
cg00017437 0.070220951
cg00021123 0.622069121
cg00021576 0.048114557

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505162_5822791012_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505162_5822791012_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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