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Sample GSM1504929 Query DataSets for GSM1504929
Status Public on Sep 17, 2014
Title Liver_63
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 54
gender: female
bmi: 40.462
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 0.814798301
cg00001583 0.06396588
cg00002028 0.070475555
cg00002719 0.19087042
cg00002837 0.467441302
cg00003202 0.029501826
cg00003287 0.199046989
cg00007036 0.92306951
cg00007898 0.052206369
cg00008004 0.175182837
cg00008647 0.068114948
cg00009292 0.123853607
cg00011717 0.923828227
cg00014168 0.495980313
cg00015286 0.81508792
cg00016238 0.701998606
cg00017221 0.121644584
cg00017437 0.098885363
cg00021123 0.857863536
cg00021576 0.068580183

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504929_5822791001_R02C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504929_5822791001_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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