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Sample GSM1504938 Query DataSets for GSM1504938
Status Public on Sep 17, 2014
Title Liver_43
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 41
gender: female
bmi: 43.284
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 0.71691642
cg00001583 0.063402507
cg00002028 0.102567995
cg00002719 0.126589973
cg00002837 0.410729742
cg00003202 0.050648106
cg00003287 0.180587807
cg00007036 0.94879777
cg00007898 0.051320033
cg00008004 0.144493841
cg00008647 0.106585905
cg00009292 0.131823003
cg00011717 0.917703251
cg00014168 0.544334126
cg00015286 0.734666099
cg00016238 0.859832717
cg00017221 0.08864976
cg00017437 0.102181284
cg00021123 0.883670588
cg00021576 0.069028268

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504938_5822791008_R01C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504938_5822791008_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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