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Sample GSM1504952 Query DataSets for GSM1504952
Status Public on Sep 17, 2014
Title Liver_89
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 31
gender: female
bmi: 44.205
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 0.712574368
cg00001583 0.064087089
cg00002028 0.080978905
cg00002719 0.180887054
cg00002837 0.393553502
cg00003202 0.040544054
cg00003287 0.184121106
cg00007036 0.926008636
cg00007898 0.035028587
cg00008004 0.134197741
cg00008647 0.190867375
cg00009292 0.153109218
cg00011717 0.927521356
cg00014168 0.503210283
cg00015286 0.76220431
cg00016238 0.843235452
cg00017221 0.071481263
cg00017437 0.10531605
cg00021123 0.877640496
cg00021576 0.063670506

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504952_5822791015_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504952_5822791015_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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