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Sample GSM1504975 Query DataSets for GSM1504975
Status Public on Sep 17, 2014
Title Liver_86
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 50
gender: male
bmi: 40.958
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 0.666428726
cg00001583 0.092858225
cg00002028 0.063721375
cg00002719 0.160348135
cg00002837 0.370677001
cg00003202 0.033233456
cg00003287 0.220049716
cg00007036 0.94860522
cg00007898 0.0493326
cg00008004 0.127040452
cg00008647 0.142815097
cg00009292 0.130934616
cg00011717 0.930081344
cg00014168 0.511045932
cg00015286 0.794407467
cg00016238 0.868753504
cg00017221 0.107676421
cg00017437 0.276620592
cg00021123 0.859225826
cg00021576 0.061124353

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504975_5822943002_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504975_5822943002_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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