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Sample GSM1504966 Query DataSets for GSM1504966
Status Public on Sep 17, 2014
Title Liver_88
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 49
gender: female
bmi: 57.443
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 0.713411109
cg00001583 0.077847962
cg00002028 0.072001556
cg00002719 0.115119253
cg00002837 0.470255722
cg00003202 0.026004794
cg00003287 0.207685974
cg00007036 0.949080403
cg00007898 0.03985288
cg00008004 0.084305645
cg00008647 0.204492103
cg00009292 0.173264999
cg00011717 0.936566329
cg00014168 0.469273227
cg00015286 0.749935352
cg00016238 0.761394845
cg00017221 0.146109879
cg00017437 0.166001655
cg00021123 0.858567936
cg00021576 0.069030413

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504966_5822791028_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504966_5822791028_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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