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Sample GSM1504986 Query DataSets for GSM1504986
Status Public on Sep 17, 2014
Title Liver_96
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 53
gender: female
bmi: 35.111
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 0.789143133
cg00001583 0.053752679
cg00002028 0.07768149
cg00002719 0.317140529
cg00002837 0.579792446
cg00003202 0.040305292
cg00003287 0.162541834
cg00007036 0.964943171
cg00007898 0.04511798
cg00008004 0.210106733
cg00008647 0.142702454
cg00009292 0.123078858
cg00011717 0.899675523
cg00014168 0.510676874
cg00015286 0.771956411
cg00016238 0.682713364
cg00017221 0.125490981
cg00017437 0.063808869
cg00021123 0.880897752
cg00021576 0.07482225

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504986_5822943019_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504986_5822943019_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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