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Sample GSM1504948 Query DataSets for GSM1504948
Status Public on Sep 17, 2014
Title Liver_73
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 42
gender: female
bmi: 50.058
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 0.690151119
cg00001583 0.06065359
cg00002028 0.063278747
cg00002719 0.138130393
cg00002837 0.540010368
cg00003202 0.027288692
cg00003287 0.156418989
cg00007036 0.952038271
cg00007898 0.046950684
cg00008004 0.203186508
cg00008647 0.128397254
cg00009292 0.140017654
cg00011717 0.907134866
cg00014168 0.420139763
cg00015286 0.736324764
cg00016238 0.748780162
cg00017221 0.114331568
cg00017437 0.076655373
cg00021123 0.866818517
cg00021576 0.082882706

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504948_5822791013_R02C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504948_5822791013_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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