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Sample GSM1504960 Query DataSets for GSM1504960
Status Public on Sep 17, 2014
Title Liver_45
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 40
gender: female
bmi: 59.847
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 0.584886208
cg00001583 0.109318468
cg00002028 0.066649628
cg00002719 0.165871927
cg00002837 0.418233915
cg00003202 0.019225122
cg00003287 0.260918089
cg00007036 0.943752099
cg00007898 0.061302492
cg00008004 0.128813959
cg00008647 0.30262307
cg00009292 0.137489204
cg00011717 0.938496969
cg00014168 0.512725294
cg00015286 0.78431169
cg00016238 0.825288299
cg00017221 0.108803289
cg00017437 0.119998455
cg00021123 0.874063444
cg00021576 0.113251189

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504960_5822791026_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504960_5822791026_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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