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Sample GSM1504935 Query DataSets for GSM1504935
Status Public on Sep 17, 2014
Title Liver_122
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 28
gender: female
bmi: 44.527
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 0.679956455
cg00001583 0.061322074
cg00002028 0.068686219
cg00002719 0.108488348
cg00002837 0.434434859
cg00003202 0.027985221
cg00003287 0.178879069
cg00007036 0.943190657
cg00007898 0.048316631
cg00008004 0.203541403
cg00008647 0.12075496
cg00009292 0.119804388
cg00011717 0.933381899
cg00014168 0.505751437
cg00015286 0.723390998
cg00016238 0.732504773
cg00017221 0.094665307
cg00017437 0.06352817
cg00021123 0.795223467
cg00021576 0.074844316

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504935_5822791003_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504935_5822791003_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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