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Sample GSM1504987 Query DataSets for GSM1504987
Status Public on Sep 17, 2014
Title Liver_58
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 52
gender: male
bmi: 69.814
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 0.85120557
cg00001583 0.051366898
cg00002028 0.070914578
cg00002719 0.11903858
cg00002837 0.391078677
cg00003202 0.038255363
cg00003287 0.149120716
cg00007036 0.915536314
cg00007898 0.046558595
cg00008004 0.112709512
cg00008647 0.086665206
cg00009292 0.121400157
cg00011717 0.916205061
cg00014168 0.620002405
cg00015286 0.6849701
cg00016238 0.806249459
cg00017221 0.079913922
cg00017437 0.109851711
cg00021123 0.873665117
cg00021576 0.091144522

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504987_5822943019_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504987_5822943019_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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