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Sample GSM1504947 Query DataSets for GSM1504947
Status Public on Sep 17, 2014
Title Liver_116
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 53
gender: male
bmi: 45.085
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 0.638196088
cg00001583 0.06791337
cg00002028 0.063267824
cg00002719 0.115635435
cg00002837 0.471846143
cg00003202 0.029807667
cg00003287 0.226622319
cg00007036 0.943676681
cg00007898 0.033393722
cg00008004 0.143118976
cg00008647 0.158572275
cg00009292 0.129388198
cg00011717 0.902515557
cg00014168 0.46126699
cg00015286 0.71571609
cg00016238 0.766011076
cg00017221 0.101553074
cg00017437 0.08208702
cg00021123 0.857500523
cg00021576 0.11267629

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504947_5822791012_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504947_5822791012_R04C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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