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Sample GSM1504967 Query DataSets for GSM1504967
Status Public on Sep 17, 2014
Title Liver_87
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 37
gender: female
bmi: 40.816
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 0.634859808
cg00001583 0.05140393
cg00002028 0.054356316
cg00002719 0.127917081
cg00002837 0.475003216
cg00003202 0.018354264
cg00003287 0.213282493
cg00007036 0.947512991
cg00007898 0.049901877
cg00008004 0.088065384
cg00008647 0.182927416
cg00009292 0.175637567
cg00011717 0.9343058
cg00014168 0.465172857
cg00015286 0.7703376
cg00016238 0.852573979
cg00017221 0.133505116
cg00017437 0.111325438
cg00021123 0.674117955
cg00021576 0.071853312

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504967_5822791028_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504967_5822791028_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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