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Sample GSM1504953 Query DataSets for GSM1504953
Status Public on Sep 17, 2014
Title Liver_93
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 37
gender: female
bmi: 47.331
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 0.699750118
cg00001583 0.083403951
cg00002028 0.051609445
cg00002719 0.109414277
cg00002837 0.389534538
cg00003202 0.024620627
cg00003287 0.286165926
cg00007036 0.945310397
cg00007898 0.050144258
cg00008004 0.16372017
cg00008647 0.120341784
cg00009292 0.148557806
cg00011717 0.926751955
cg00014168 0.555641734
cg00015286 0.696747697
cg00016238 0.73405985
cg00017221 0.088667277
cg00017437 0.09529297
cg00021123 0.79349777
cg00021576 0.064354127

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504953_5822791015_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504953_5822791015_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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