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Sample GSM1504951 Query DataSets for GSM1504951
Status Public on Sep 17, 2014
Title Liver_76
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 43
gender: female
bmi: 40.518
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 0.717580471
cg00001583 0.058946106
cg00002028 0.049642082
cg00002719 0.254862447
cg00002837 0.570804381
cg00003202 0.035066283
cg00003287 0.187083907
cg00007036 0.928387194
cg00007898 0.05487833
cg00008004 0.130887474
cg00008647 0.193804538
cg00009292 0.0981755
cg00011717 0.884990644
cg00014168 0.482471681
cg00015286 0.74653734
cg00016238 0.779346831
cg00017221 0.142426179
cg00017437 0.08054746
cg00021123 0.867805458
cg00021576 0.098496334

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504951_5822791013_R06C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504951_5822791013_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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