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Sample GSM1504949 Query DataSets for GSM1504949
Status Public on Sep 17, 2014
Title Liver_55
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 47
gender: female
bmi: 63.362
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 0.760895963
cg00001583 0.068231419
cg00002028 0.050249248
cg00002719 0.265089019
cg00002837 0.553839767
cg00003202 0.026642317
cg00003287 0.191876269
cg00007036 0.954136465
cg00007898 0.058069509
cg00008004 0.2482494
cg00008647 0.225621797
cg00009292 0.135936748
cg00011717 0.924236694
cg00014168 0.533510925
cg00015286 0.77847999
cg00016238 0.760085487
cg00017221 0.117847603
cg00017437 0.07274012
cg00021123 0.909030361
cg00021576 0.106975056

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504949_5822791013_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504949_5822791013_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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