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Sample GSM1504991 Query DataSets for GSM1504991
Status Public on Sep 17, 2014
Title Liver_61
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 47
gender: female
bmi: 37.300
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 0.788550655
cg00001583 0.066034477
cg00002028 0.093000457
cg00002719 0.144956115
cg00002837 0.607441773
cg00003202 0.060803247
cg00003287 0.138785909
cg00007036 0.935014001
cg00007898 0.023728872
cg00008004 0.088652657
cg00008647 0.074063005
cg00009292 0.110645766
cg00011717 0.90034343
cg00014168 0.531306288
cg00015286 0.683516957
cg00016238 0.82367107
cg00017221 0.07061136
cg00017437 0.050753026
cg00021123 0.801048128
cg00021576 0.079045164

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504991_5822943028_R02C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1504991_5822943028_R02C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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