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Sample GSM1504961 Query DataSets for GSM1504961
Status Public on Sep 17, 2014
Title Liver_54
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 49
gender: female
bmi: 73.617
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 0.635846169
cg00001583 0.061698492
cg00002028 0.087605683
cg00002719 0.144104503
cg00002837 0.389628347
cg00003202 0.036239149
cg00003287 0.246232325
cg00007036 0.947622617
cg00007898 0.040377583
cg00008004 0.177615358
cg00008647 0.119743602
cg00009292 0.152337486
cg00011717 0.9034886
cg00014168 0.516740836
cg00015286 0.750981091
cg00016238 0.802504321
cg00017221 0.092363151
cg00017437 0.108044109
cg00021123 0.8526425
cg00021576 0.108577089

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504961_5822791026_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504961_5822791026_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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