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Sample GSM1504941 Query DataSets for GSM1504941
Status Public on Sep 17, 2014
Title Liver_36
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 65
gender: male
bmi: 46.283
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 0.671309851
cg00001583 0.061740936
cg00002028 0.069634358
cg00002719 0.204643515
cg00002837 0.315036313
cg00003202 0.027343283
cg00003287 0.291225111
cg00007036 0.934097666
cg00007898 0.027373078
cg00008004 0.143767816
cg00008647 0.143728093
cg00009292 0.144213711
cg00011717 0.93357714
cg00014168 0.501195981
cg00015286 0.794204663
cg00016238 0.847601067
cg00017221 0.1585225
cg00017437 0.071574863
cg00021123 0.796247887
cg00021576 0.080569884

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504941_5822791011_R02C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504941_5822791011_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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