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Sample GSM1504950 Query DataSets for GSM1504950
Status Public on Sep 17, 2014
Title Liver_131
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 54
gender: male
bmi: 41.402
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 0.739671502
cg00001583 0.065945868
cg00002028 0.069243613
cg00002719 0.131324902
cg00002837 0.598172242
cg00003202 0.031290379
cg00003287 0.177319634
cg00007036 0.966930101
cg00007898 0.060676886
cg00008004 0.169066321
cg00008647 0.120276329
cg00009292 0.14245271
cg00011717 0.908457144
cg00014168 0.459157595
cg00015286 0.731771499
cg00016238 0.814274545
cg00017221 0.09188856
cg00017437 0.082119306
cg00021123 0.89768591
cg00021576 0.131988829

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504950_5822791013_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504950_5822791013_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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