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Sample GSM1504939 Query DataSets for GSM1504939
Status Public on Sep 17, 2014
Title Liver_110
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 41
gender: female
bmi: 34.809
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 0.776206905
cg00001583 0.076159954
cg00002028 0.072414997
cg00002719 0.173971306
cg00002837 0.466628664
cg00003202 0.04059499
cg00003287 0.210744639
cg00007036 0.941179283
cg00007898 0.061845448
cg00008004 0.126998343
cg00008647 0.186904148
cg00009292 0.128270157
cg00011717 0.909138048
cg00014168 0.592371827
cg00015286 0.757907552
cg00016238 0.641320431
cg00017221 0.094778997
cg00017437 0.138017617
cg00021123 0.861156011
cg00021576 0.07742663

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504939_5822791008_R02C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504939_5822791008_R02C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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