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Sample GSM1505188 Query DataSets for GSM1505188
Status Public on Sep 17, 2014
Title VAT_60
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: 38.100
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 5822791028_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 0.704231099
cg00001583 0.101387028
cg00002028 0.069907955
cg00002719 0.0768533
cg00002837 0.344503797
cg00003202 0.02582181
cg00003287 0.244736328
cg00007036 0.9051613
cg00007898 0.055342426
cg00008004 0.078201493
cg00008647 0.142716893
cg00009292 0.174031626
cg00011717 0.91202062
cg00014168 0.691227142
cg00015286 0.647908335
cg00016238 0.87457357
cg00017221 0.066797342
cg00017437 0.035760014
cg00021123 0.673817948
cg00021576 0.061097828

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505188_5822791028_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505188_5822791028_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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