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Sample GSM1505166 Query DataSets for GSM1505166
Status Public on Sep 17, 2014
Title VAT_53
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 48
bmi: 40.581
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 5822791013_R03C02
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 0.791475321
cg00001583 0.087321323
cg00002028 0.073652323
cg00002719 0.164393006
cg00002837 0.36578974
cg00003202 0.037689384
cg00003287 0.265456268
cg00007036 0.930644338
cg00007898 0.048928057
cg00008004 0.143935384
cg00008647 0.135197769
cg00009292 0.110171303
cg00011717 0.877948052
cg00014168 0.673208379
cg00015286 0.812453393
cg00016238 0.849618279
cg00017221 0.105700947
cg00017437 0.086190401
cg00021123 0.669134626
cg00021576 0.102814993

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505166_5822791013_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505166_5822791013_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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