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Sample GSM1505193 Query DataSets for GSM1505193
Status Public on Sep 17, 2014
Title VAT_87
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 37
bmi: 40.816
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 5822943002_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 0.833850289
cg00001583 0.075471015
cg00002028 0.087176183
cg00002719 0.160913209
cg00002837 0.372062507
cg00003202 0.039081017
cg00003287 0.247291202
cg00007036 0.939944851
cg00007898 0.040790753
cg00008004 0.134908352
cg00008647 0.103188662
cg00009292 0.154609364
cg00011717 0.898824107
cg00014168 0.689326131
cg00015286 0.735839132
cg00016238 0.723759871
cg00017221 0.109252883
cg00017437 0.077815091
cg00021123 0.741190131
cg00021576 0.08775852

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505193_5822943002_R01C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505193_5822943002_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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