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Sample GSM1504928 Query DataSets for GSM1504928
Status Public on Sep 17, 2014
Title Liver_107
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 62
gender: female
bmi: 40.645
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 0.720255784
cg00001583 0.098986671
cg00002028 0.078736978
cg00002719 0.119809565
cg00002837 0.377814857
cg00003202 0.038269107
cg00003287 0.218534134
cg00007036 0.927608064
cg00007898 0.038127192
cg00008004 0.161701264
cg00008647 0.115086114
cg00009292 0.148417732
cg00011717 0.912704901
cg00014168 0.516554734
cg00015286 0.741378773
cg00016238 0.771522669
cg00017221 0.081262045
cg00017437 0.161275898
cg00021123 0.755418222
cg00021576 0.068742113

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504928_5822791001_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504928_5822791001_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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