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Sample GSM1504930 Query DataSets for GSM1504930
Status Public on Sep 17, 2014
Title Liver_123
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 42
gender: female
bmi: 40.081
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 0.808460033
cg00001583 0.051783997
cg00002028 0.072397051
cg00002719 0.204525106
cg00002837 0.489276132
cg00003202 0.026191626
cg00003287 0.161297036
cg00007036 0.952329536
cg00007898 0.049313144
cg00008004 0.178207018
cg00008647 0.151697055
cg00009292 0.14220081
cg00011717 0.927455161
cg00014168 0.473524364
cg00015286 0.756592525
cg00016238 0.694021505
cg00017221 0.088582708
cg00017437 0.08654159
cg00021123 0.831261901
cg00021576 0.069843323

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504930_5822791001_R02C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504930_5822791001_R02C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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