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Sample GSM1504976 Query DataSets for GSM1504976
Status Public on Sep 17, 2014
Title Liver_125
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 45
gender: female
bmi: 45.880
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 0.671946506
cg00001583 0.07498696
cg00002028 0.062257372
cg00002719 0.186398772
cg00002837 0.616836328
cg00003202 0.077544845
cg00003287 0.154773675
cg00007036 0.94542933
cg00007898 0.063407011
cg00008004 0.169729086
cg00008647 0.063291477
cg00009292 0.142806829
cg00011717 0.920895135
cg00014168 0.517355288
cg00015286 0.826438785
cg00016238 0.704415765
cg00017221 0.160957371
cg00017437 0.080433367
cg00021123 0.825204433
cg00021576 0.083408818

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504976_5822943002_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504976_5822943002_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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