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Sample GSM1505175 Query DataSets for GSM1505175
Status Public on Sep 17, 2014
Title VAT_63
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 54
bmi: 40.462
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_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 0.737430004
cg00001583 0.117700096
cg00002028 0.062292152
cg00002719 0.162684875
cg00002837 0.349840365
cg00003202 0.028026619
cg00003287 0.255228964
cg00007036 0.939990131
cg00007898 0.050895037
cg00008004 0.116975669
cg00008647 0.097399268
cg00009292 0.148030192
cg00011717 0.896333907
cg00014168 0.594337041
cg00015286 0.818159197
cg00016238 0.794101711
cg00017221 0.111074638
cg00017437 0.094471588
cg00021123 0.705643457
cg00021576 0.068839142

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505175_5822791019_R02C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505175_5822791019_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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