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Sample GSM1504984 Query DataSets for GSM1504984
Status Public on Sep 17, 2014
Title Liver_64
Sample type genomic
 
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 46
gender: female
bmi: 47.327
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
5822943015_R05C01
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
E-mail(s) lude@ludesign.nl
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
ID_REF
VALUE SWAN Normalized M-value

Data table
ID_REF VALUE
cg00001349 0.654288226
cg00001583 0.069751367
cg00002028 0.084535039
cg00002719 0.123679348
cg00002837 0.516201588
cg00003202 0.045898526
cg00003287 0.187091532
cg00007036 0.932545368
cg00007898 0.045337473
cg00008004 0.079150422
cg00008647 0.09818449
cg00009292 0.14381456
cg00011717 0.926053729
cg00014168 0.505289525
cg00015286 0.676509547
cg00016238 0.816502489
cg00017221 0.078454213
cg00017437 0.072808162
cg00021123 0.900574846
cg00021576 0.060853683

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.




Supplementary file Size Download File type/resource
GSM1504984_5822943015_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504984_5822943015_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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