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Sample GSM1504962 Query DataSets for GSM1504962
Status Public on Sep 17, 2014
Title Liver_85
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 65
gender: female
bmi: 55.432
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 0.906989041
cg00001583 0.031676205
cg00002028 0.07083762
cg00002719 0.148120079
cg00002837 0.547714936
cg00003202 0.031509062
cg00003287 0.165850551
cg00007036 0.964224863
cg00007898 0.050959352
cg00008004 0.1670222
cg00008647 0.089897561
cg00009292 0.156743514
cg00011717 0.944611356
cg00014168 0.536888403
cg00015286 0.758162187
cg00016238 0.849079005
cg00017221 0.099573451
cg00017437 0.102572968
cg00021123 0.898070342
cg00021576 0.040992727

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504962_5822791027_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504962_5822791027_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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