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Sample GSM1504988 Query DataSets for GSM1504988
Status Public on Sep 17, 2014
Title Liver_103
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 28
gender: male
bmi: 68.679
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 0.596052379
cg00001583 0.052998112
cg00002028 0.079173663
cg00002719 0.122245962
cg00002837 0.425873986
cg00003202 0.025888189
cg00003287 0.207438644
cg00007036 0.950620676
cg00007898 0.059210472
cg00008004 0.12265113
cg00008647 0.140800473
cg00009292 0.166144927
cg00011717 0.892600687
cg00014168 0.44492166
cg00015286 0.664964482
cg00016238 0.848915152
cg00017221 0.099843591
cg00017437 0.079505385
cg00021123 0.818700807
cg00021576 0.119651083

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504988_5822943019_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504988_5822943019_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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