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Sample GSM1504954 Query DataSets for GSM1504954
Status Public on Sep 17, 2014
Title Liver_95
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 64
gender: female
bmi: 38.974
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 0.63831723
cg00001583 0.06106209
cg00002028 0.064903947
cg00002719 0.152064504
cg00002837 0.43103193
cg00003202 0.035567161
cg00003287 0.151833108
cg00007036 0.934331036
cg00007898 0.026042286
cg00008004 0.129737926
cg00008647 0.107757721
cg00009292 0.126790957
cg00011717 0.914026094
cg00014168 0.431914702
cg00015286 0.647073227
cg00016238 0.799918568
cg00017221 0.095047812
cg00017437 0.073408601
cg00021123 0.847895417
cg00021576 0.070809592

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504954_5822791015_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504954_5822791015_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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