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Sample GSM1504934 Query DataSets for GSM1504934
Status Public on Sep 17, 2014
Title Liver_42
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 45
gender: female
bmi: 50.538
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 0.697372898
cg00001583 0.066793734
cg00002028 0.074612652
cg00002719 0.128807682
cg00002837 0.437630718
cg00003202 0.022780368
cg00003287 0.247128133
cg00007036 0.933250644
cg00007898 0.021402685
cg00008004 0.149623032
cg00008647 0.133871156
cg00009292 0.156526393
cg00011717 0.940537038
cg00014168 0.48443373
cg00015286 0.715642361
cg00016238 0.91372365
cg00017221 0.104152866
cg00017437 0.106656416
cg00021123 0.873335262
cg00021576 0.076722678

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504934_5822791003_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504934_5822791003_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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