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Sample GSM1504963 Query DataSets for GSM1504963
Status Public on Sep 17, 2014
Title Liver_78
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 52
gender: male
bmi: 38.617
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 0.876726836
cg00001583 0.071945904
cg00002028 0.098949325
cg00002719 0.166335273
cg00002837 0.391101073
cg00003202 0.024000626
cg00003287 0.147013652
cg00007036 0.961148966
cg00007898 0.060814374
cg00008004 0.139954871
cg00008647 0.121630057
cg00009292 0.140454157
cg00011717 0.962558267
cg00014168 0.706539757
cg00015286 0.863414454
cg00016238 0.793707496
cg00017221 0.110388929
cg00017437 0.096720453
cg00021123 0.911353055
cg00021576 0.057173268

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504963_5822791027_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504963_5822791027_R06C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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