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Sample GSM1504957 Query DataSets for GSM1504957
Status Public on Sep 17, 2014
Title Liver_75
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 46
gender: male
bmi: 40.635
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 0.634701106
cg00001583 0.071039704
cg00002028 0.073624688
cg00002719 0.245162455
cg00002837 0.425571949
cg00003202 0.034025064
cg00003287 0.190158728
cg00007036 0.942047872
cg00007898 0.037136643
cg00008004 0.101307368
cg00008647 0.127846723
cg00009292 0.164572382
cg00011717 0.901337071
cg00014168 0.47761694
cg00015286 0.778715014
cg00016238 0.863825288
cg00017221 0.139838001
cg00017437 0.080172032
cg00021123 0.850670271
cg00021576 0.089639786

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504957_5822791019_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504957_5822791019_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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