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Sample GSM1504971 Query DataSets for GSM1504971
Status Public on Sep 17, 2014
Title Liver_74
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 37
gender: female
bmi: 53.508
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 0.711911391
cg00001583 0.051902485
cg00002028 0.063358103
cg00002719 0.122842375
cg00002837 0.426612872
cg00003202 0.026678842
cg00003287 0.239638895
cg00007036 0.938650763
cg00007898 0.049960311
cg00008004 0.164314896
cg00008647 0.189130547
cg00009292 0.168979222
cg00011717 0.947445275
cg00014168 0.489383584
cg00015286 0.75556485
cg00016238 0.855033996
cg00017221 0.106540111
cg00017437 0.073549955
cg00021123 0.819606875
cg00021576 0.085644676

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504971_5822791029_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504971_5822791029_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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