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Sample GSM1504937 Query DataSets for GSM1504937
Status Public on Sep 17, 2014
Title Liver_66
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 29
gender: male
bmi: 42.659
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 0.59103135
cg00001583 0.064440084
cg00002028 0.078136946
cg00002719 0.0670528
cg00002837 0.418591797
cg00003202 0.027116838
cg00003287 0.246618072
cg00007036 0.941188971
cg00007898 0.049822607
cg00008004 0.150360448
cg00008647 0.113872112
cg00009292 0.1654874
cg00011717 0.922305706
cg00014168 0.47776714
cg00015286 0.705283209
cg00016238 0.874529863
cg00017221 0.087065487
cg00017437 0.090443767
cg00021123 0.82178059
cg00021576 0.057077391

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504937_5822791008_R01C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504937_5822791008_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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