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Sample GSM1504992 Query DataSets for GSM1504992
Status Public on Sep 17, 2014
Title Liver_113
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 45
gender: female
bmi: 37.532
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 0.797986695
cg00001583 0.067745056
cg00002028 0.104881447
cg00002719 0.113266385
cg00002837 0.478241485
cg00003202 0.047209785
cg00003287 0.167379571
cg00007036 0.944657269
cg00007898 0.044390447
cg00008004 0.126037962
cg00008647 0.138218513
cg00009292 0.137562957
cg00011717 0.928741098
cg00014168 0.495855461
cg00015286 0.674781748
cg00016238 0.71331485
cg00017221 0.096992101
cg00017437 0.065813696
cg00021123 0.84837913
cg00021576 0.071910934

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504992_5822943028_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504992_5822943028_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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