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Sample GSM1504959 Query DataSets for GSM1504959
Status Public on Sep 17, 2014
Title Liver_127
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 40
gender: female
bmi: 41.660
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 0.824685783
cg00001583 0.059065745
cg00002028 0.075928934
cg00002719 0.115746917
cg00002837 0.396707785
cg00003202 0.024000626
cg00003287 0.202808767
cg00007036 0.948154678
cg00007898 0.040810594
cg00008004 0.163064526
cg00008647 0.119759413
cg00009292 0.145805862
cg00011717 0.934478117
cg00014168 0.552157023
cg00015286 0.779019518
cg00016238 0.670342035
cg00017221 0.089211557
cg00017437 0.115179198
cg00021123 0.839445971
cg00021576 0.076834854

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504959_5822791024_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504959_5822791024_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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