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Sample GSM1504985 Query DataSets for GSM1504985
Status Public on Sep 17, 2014
Title Liver_128
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 52
gender: female
bmi: 49.097
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 0.716121913
cg00001583 0.04896149
cg00002028 0.05881994
cg00002719 0.118643004
cg00002837 0.468165818
cg00003202 0.046969203
cg00003287 0.180325394
cg00007036 0.949942364
cg00007898 0.038172661
cg00008004 0.140089573
cg00008647 0.163775284
cg00009292 0.140054097
cg00011717 0.915200821
cg00014168 0.512316689
cg00015286 0.670181633
cg00016238 0.782433904
cg00017221 0.106355994
cg00017437 0.130508968
cg00021123 0.876104261
cg00021576 0.096346286

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504985_5822943019_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504985_5822943019_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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