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Sample GSM1504969 Query DataSets for GSM1504969
Status Public on Sep 17, 2014
Title Liver_68
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 49
gender: female
bmi: 38.372
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 0.630503332
cg00001583 0.06586732
cg00002028 0.058361846
cg00002719 0.143648505
cg00002837 0.445276518
cg00003202 0.019354623
cg00003287 0.163770477
cg00007036 0.940436104
cg00007898 0.041098559
cg00008004 0.077107849
cg00008647 0.19349169
cg00009292 0.170599903
cg00011717 0.938641826
cg00014168 0.507801406
cg00015286 0.813772641
cg00016238 0.896712711
cg00017221 0.109776606
cg00017437 0.100734668
cg00021123 0.882788784
cg00021576 0.073887603

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504969_5822791028_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504969_5822791028_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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