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Sample GSM1504970 Query DataSets for GSM1504970
Status Public on Sep 17, 2014
Title Liver_48
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 33
gender: female
bmi: 42.588
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 0.680760402
cg00001583 0.068010963
cg00002028 0.061485953
cg00002719 0.090361285
cg00002837 0.467653705
cg00003202 0.035037294
cg00003287 0.257321587
cg00007036 0.965286832
cg00007898 0.05162357
cg00008004 0.103996054
cg00008647 0.16505025
cg00009292 0.158291648
cg00011717 0.938969984
cg00014168 0.486521745
cg00015286 0.818174478
cg00016238 0.915961135
cg00017221 0.084263128
cg00017437 0.055899243
cg00021123 0.835235196
cg00021576 0.06230539

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504970_5822791029_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504970_5822791029_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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