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Sample GSM1504990 Query DataSets for GSM1504990
Status Public on Sep 17, 2014
Title Liver_105
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 34
gender: male
bmi: 59.259
tissue: liver
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 Liver sample of Morbidly patient
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)
GSE61446 Epigenome analysis of the human liver
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 0.678338876
cg00001583 0.065665614
cg00002028 0.054538947
cg00002719 0.100892218
cg00002837 0.440887856
cg00003202 0.037913208
cg00003287 0.22745157
cg00007036 0.941925557
cg00007898 0.03768069
cg00008004 0.144135067
cg00008647 0.14814215
cg00009292 0.131929122
cg00011717 0.90840913
cg00014168 0.494238129
cg00015286 0.708649681
cg00016238 0.89177821
cg00017221 0.122207427
cg00017437 0.141907687
cg00021123 0.846375446
cg00021576 0.076246638

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504990_5822943028_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504990_5822943028_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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