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Sample GSM1504980 Query DataSets for GSM1504980
Status Public on Sep 17, 2014
Title Liver_84
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 40
gender: male
bmi: 48.231
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 0.623417547
cg00001583 0.061446592
cg00002028 0.07557575
cg00002719 0.090534207
cg00002837 0.392263654
cg00003202 0.020900884
cg00003287 0.184700119
cg00007036 0.933431617
cg00007898 0.038223768
cg00008004 0.12612937
cg00008647 0.108991286
cg00009292 0.165801692
cg00011717 0.904042427
cg00014168 0.513497162
cg00015286 0.719096552
cg00016238 0.831976998
cg00017221 0.10462485
cg00017437 0.084326577
cg00021123 0.815987559
cg00021576 0.124231849

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504980_5822943013_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504980_5822943013_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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