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Sample GSM1504968 Query DataSets for GSM1504968
Status Public on Sep 17, 2014
Title Liver_100
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 32
gender: male
bmi: 51.172
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 0.83070813
cg00001583 0.050668172
cg00002028 0.079227417
cg00002719 0.080174277
cg00002837 0.429525144
cg00003202 0.02396119
cg00003287 0.185515587
cg00007036 0.963345116
cg00007898 0.048419984
cg00008004 0.105485676
cg00008647 0.139346454
cg00009292 0.159072193
cg00011717 0.941780999
cg00014168 0.544188774
cg00015286 0.798268559
cg00016238 0.835856132
cg00017221 0.116937097
cg00017437 0.099441027
cg00021123 0.846646164
cg00021576 0.08004333

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504968_5822791028_R06C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504968_5822791028_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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