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Sample GSM1504942 Query DataSets for GSM1504942
Status Public on Sep 17, 2014
Title Liver_69
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 38
gender: female
bmi: 53.487
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 0.716327056
cg00001583 0.060562235
cg00002028 0.077705939
cg00002719 0.173831338
cg00002837 0.453060223
cg00003202 0.032117853
cg00003287 0.244460936
cg00007036 0.937617778
cg00007898 0.025879593
cg00008004 0.149880988
cg00008647 0.141517126
cg00009292 0.140220336
cg00011717 0.910116853
cg00014168 0.526296258
cg00015286 0.746548783
cg00016238 0.832345282
cg00017221 0.114828859
cg00017437 0.135834687
cg00021123 0.817646769
cg00021576 0.086118615

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504942_5822791011_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504942_5822791011_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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