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Sample GSM1504994 Query DataSets for GSM1504994
Status Public on Sep 17, 2014
Title Liver_109
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 50
gender: female
bmi: 46.680
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 0.673734884
cg00001583 0.060060201
cg00002028 0.080368345
cg00002719 0.164256086
cg00002837 0.487353035
cg00003202 0.028223577
cg00003287 0.165365709
cg00007036 0.948214121
cg00007898 0.045154975
cg00008004 0.176794578
cg00008647 0.159667833
cg00009292 0.162275638
cg00011717 0.924231496
cg00014168 0.51600354
cg00015286 0.83180616
cg00016238 0.736166775
cg00017221 0.094601384
cg00017437 0.062127239
cg00021123 0.903516452
cg00021576 0.06712297

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504994_5822943029_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504994_5822943029_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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