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Sample GSM1505180 Query DataSets for GSM1505180
Status Public on Sep 17, 2014
Title VAT_128
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 52
bmi: 49.097
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 5822791026_R02C01
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 0.649118096
cg00001583 0.070450046
cg00002028 0.087955894
cg00002719 0.114787467
cg00002837 0.315035448
cg00003202 0.021863093
cg00003287 0.243360835
cg00007036 0.930519299
cg00007898 0.048073146
cg00008004 0.167639927
cg00008647 0.1470956
cg00009292 0.119273189
cg00011717 0.905892183
cg00014168 0.658568191
cg00015286 0.73049853
cg00016238 0.800191753
cg00017221 0.106481851
cg00017437 0.054200157
cg00021123 0.685008171
cg00021576 0.070339936

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505180_5822791026_R02C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505180_5822791026_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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