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Sample GSM1504979 Query DataSets for GSM1504979
Status Public on Sep 17, 2014
Title Liver_52
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 31
gender: male
bmi: 63.712
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 0.725580031
cg00001583 0.056070931
cg00002028 0.064893379
cg00002719 0.118751563
cg00002837 0.44694879
cg00003202 0.033083448
cg00003287 0.196704085
cg00007036 0.921671122
cg00007898 0.056416633
cg00008004 0.129472469
cg00008647 0.096437793
cg00009292 0.131371156
cg00011717 0.910637451
cg00014168 0.499593851
cg00015286 0.739566062
cg00016238 0.765698631
cg00017221 0.111562296
cg00017437 0.076347127
cg00021123 0.900570045
cg00021576 0.07581343

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504979_5822943013_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504979_5822943013_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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