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Sample GSM1504973 Query DataSets for GSM1504973
Status Public on Sep 17, 2014
Title Liver_102
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 41
gender: male
bmi: 50.365
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 0.622346435
cg00001583 0.060215448
cg00002028 0.067706307
cg00002719 0.156280433
cg00002837 0.39210875
cg00003202 0.042825904
cg00003287 0.199582162
cg00007036 0.933254398
cg00007898 0.039784662
cg00008004 0.123987656
cg00008647 0.120325622
cg00009292 0.140165223
cg00011717 0.896538134
cg00014168 0.455845552
cg00015286 0.661734315
cg00016238 0.717326862
cg00017221 0.100724483
cg00017437 0.122786036
cg00021123 0.832004429
cg00021576 0.0763738

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504973_5822943002_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504973_5822943002_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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