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Sample GSM1504943 Query DataSets for GSM1504943
Status Public on Sep 17, 2014
Title Liver_62
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 47
gender: female
bmi: 35.154
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 0.703937675
cg00001583 0.071046918
cg00002028 0.076244421
cg00002719 0.17372973
cg00002837 0.434243007
cg00003202 0.023279264
cg00003287 0.203660199
cg00007036 0.948069371
cg00007898 0.037620662
cg00008004 0.148343595
cg00008647 0.144660592
cg00009292 0.160373105
cg00011717 0.926039505
cg00014168 0.491655056
cg00015286 0.717925018
cg00016238 0.787054972
cg00017221 0.132159416
cg00017437 0.11940221
cg00021123 0.788340396
cg00021576 0.087180993

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504943_5822791011_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504943_5822791011_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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