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Sample GSM1504977 Query DataSets for GSM1504977
Status Public on Sep 17, 2014
Title Liver_106
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 34
gender: female
bmi: 44.359
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 0.633787066
cg00001583 0.057311328
cg00002028 0.069347622
cg00002719 0.128057068
cg00002837 0.530421679
cg00003202 0.028596258
cg00003287 0.206671094
cg00007036 0.951910393
cg00007898 0.032514459
cg00008004 0.107790636
cg00008647 0.133488368
cg00009292 0.123526515
cg00011717 0.924974749
cg00014168 0.465475459
cg00015286 0.691964664
cg00016238 0.852265589
cg00017221 0.118029915
cg00017437 0.090440459
cg00021123 0.862638722
cg00021576 0.112665121

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504977_5822943002_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504977_5822943002_R04C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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