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Sample GSM1505163 Query DataSets for GSM1505163
Status Public on Sep 17, 2014
Title VAT_102
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 41
bmi: 50.365
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_R01C02
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 0.712145229
cg00001583 0.075957871
cg00002028 0.061526969
cg00002719 0.187515776
cg00002837 0.288105373
cg00003202 0.020173199
cg00003287 0.323423762
cg00007036 0.924474442
cg00007898 0.067680178
cg00008004 0.133125431
cg00008647 0.121023676
cg00009292 0.128965796
cg00011717 0.89264643
cg00014168 0.628441157
cg00015286 0.755621543
cg00016238 0.834034002
cg00017221 0.153769929
cg00017437 0.062868618
cg00021123 0.581953483
cg00021576 0.104019507

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505163_5822791012_R01C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505163_5822791012_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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