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Sample GSM1504936 Query DataSets for GSM1504936
Status Public on Sep 17, 2014
Title Liver_112
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 47
gender: female
bmi: 35.907
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 0.728396843
cg00001583 0.043318508
cg00002028 0.05234606
cg00002719 0.288400282
cg00002837 0.478582264
cg00003202 0.025073485
cg00003287 0.137181098
cg00007036 0.92384494
cg00007898 0.048639669
cg00008004 0.13390494
cg00008647 0.124647145
cg00009292 0.118116348
cg00011717 0.923915776
cg00014168 0.532684369
cg00015286 0.786321314
cg00016238 0.774969873
cg00017221 0.098703731
cg00017437 0.074282009
cg00021123 0.866759477
cg00021576 0.060949151

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504936_5822791003_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504936_5822791003_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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