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Sample GSM1504940 Query DataSets for GSM1504940
Status Public on Sep 17, 2014
Title Liver_51
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 59
gender: female
bmi: 46.475
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 0.670916374
cg00001583 0.056265866
cg00002028 0.074589022
cg00002719 0.189875178
cg00002837 0.565080954
cg00003202 0.024102734
cg00003287 0.160288726
cg00007036 0.939523951
cg00007898 0.036501704
cg00008004 0.151587355
cg00008647 0.146109879
cg00009292 0.131643416
cg00011717 0.914113678
cg00014168 0.477117656
cg00015286 0.767578114
cg00016238 0.82698978
cg00017221 0.116866791
cg00017437 0.080779593
cg00021123 0.861229586
cg00021576 0.059130962

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504940_5822791011_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504940_5822791011_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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