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Sample GSM1504955 Query DataSets for GSM1504955
Status Public on Sep 17, 2014
Title Liver_104
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 53
gender: female
bmi: 35.176
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 0.640650833
cg00001583 0.03016128
cg00002028 0.083303869
cg00002719 0.241378972
cg00002837 0.52108927
cg00003202 0.03339808
cg00003287 0.165427451
cg00007036 0.934221746
cg00007898 0.036400025
cg00008004 0.13104856
cg00008647 0.117322404
cg00009292 0.15788651
cg00011717 0.912620478
cg00014168 0.482590591
cg00015286 0.787113496
cg00016238 0.856026442
cg00017221 0.110860963
cg00017437 0.073395301
cg00021123 0.817522136
cg00021576 0.092453678

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504955_5822791018_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504955_5822791018_R04C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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