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Sample GSM1505149 Query DataSets for GSM1505149
Status Public on Sep 17, 2014
Title VAT_125
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: 45.880
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 5822791002_R04C01
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 0.704191698
cg00001583 0.122021861
cg00002028 0.078360219
cg00002719 0.116110072
cg00002837 0.373237958
cg00003202 0.02661543
cg00003287 0.249281624
cg00007036 0.937010488
cg00007898 0.051743583
cg00008004 0.218128199
cg00008647 0.11890262
cg00009292 0.151862102
cg00011717 0.901674912
cg00014168 0.617734331
cg00015286 0.75880636
cg00016238 0.840505387
cg00017221 0.105584158
cg00017437 0.075898778
cg00021123 0.648296993
cg00021576 0.117798091

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505149_5822791002_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505149_5822791002_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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