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Sample GSM1504974 Query DataSets for GSM1504974
Status Public on Sep 17, 2014
Title Liver_97
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 54
gender: female
bmi: 43.183
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 0.810420709
cg00001583 0.061813558
cg00002028 0.071067177
cg00002719 0.232231712
cg00002837 0.537207739
cg00003202 0.055695819
cg00003287 0.163152588
cg00007036 0.934368432
cg00007898 0.05475398
cg00008004 0.162494962
cg00008647 0.125418426
cg00009292 0.116148301
cg00011717 0.926487236
cg00014168 0.500490413
cg00015286 0.835116244
cg00016238 0.844925325
cg00017221 0.096312559
cg00017437 0.075711792
cg00021123 0.814903703
cg00021576 0.078292156

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504974_5822943002_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504974_5822943002_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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