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Sample GSM1505170 Query DataSets for GSM1505170
Status Public on Sep 17, 2014
Title VAT_122
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 28
bmi: 44.527
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 5822791015_R06C02
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 0.762728474
cg00001583 0.069110197
cg00002028 0.068255021
cg00002719 0.112177713
cg00002837 0.361746943
cg00003202 0.026045996
cg00003287 0.279517376
cg00007036 0.934390099
cg00007898 0.058331236
cg00008004 0.147273759
cg00008647 0.115202235
cg00009292 0.146254647
cg00011717 0.927634709
cg00014168 0.67520937
cg00015286 0.718692298
cg00016238 0.711838148
cg00017221 0.063252049
cg00017437 0.047349934
cg00021123 0.669605434
cg00021576 0.072550561

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505170_5822791015_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505170_5822791015_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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