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Sample GSM1504933 Query DataSets for GSM1504933
Status Public on Sep 17, 2014
Title Liver_40
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 67
gender: male
bmi: 49.931
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 0.497325661
cg00001583 0.06809863
cg00002028 0.064776509
cg00002719 0.161594792
cg00002837 0.487332044
cg00003202 0.031342247
cg00003287 0.147860391
cg00007036 0.952883952
cg00007898 0.042591124
cg00008004 0.237549133
cg00008647 0.088870767
cg00009292 0.122621529
cg00011717 0.913404389
cg00014168 0.418022016
cg00015286 0.731933738
cg00016238 0.817747556
cg00017221 0.085397413
cg00017437 0.074699859
cg00021123 0.83737651
cg00021576 0.076502949

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504933_5822791003_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504933_5822791003_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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