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Sample GSM1505177 Query DataSets for GSM1505177
Status Public on Sep 17, 2014
Title VAT_42
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 45
bmi: 50.538
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_R04C02
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 0.739466971
cg00001583 0.079052634
cg00002028 0.061011973
cg00002719 0.219601162
cg00002837 0.34656159
cg00003202 0.033271392
cg00003287 0.213506972
cg00007036 0.949926393
cg00007898 0.044902585
cg00008004 0.14378934
cg00008647 0.10230136
cg00009292 0.138120218
cg00011717 0.904396325
cg00014168 0.666409528
cg00015286 0.82172924
cg00016238 0.841848142
cg00017221 0.104186168
cg00017437 0.059315445
cg00021123 0.759822113
cg00021576 0.074793377

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505177_5822791019_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505177_5822791019_R04C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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