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Sample GSM1504965 Query DataSets for GSM1504965
Status Public on Sep 17, 2014
Title Liver_92
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 39
gender: male
bmi: 45.764
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 0.598926359
cg00001583 0.076326269
cg00002028 0.050096035
cg00002719 0.102025254
cg00002837 0.468689517
cg00003202 0.033244173
cg00003287 0.189086188
cg00007036 0.941950823
cg00007898 0.03360486
cg00008004 0.075235308
cg00008647 0.189143688
cg00009292 0.169720149
cg00011717 0.934645882
cg00014168 0.450689179
cg00015286 0.676699993
cg00016238 0.804017952
cg00017221 0.084958468
cg00017437 0.104220898
cg00021123 0.845431726
cg00021576 0.065887773

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504965_5822791028_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504965_5822791028_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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