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Sample GSM1504946 Query DataSets for GSM1504946
Status Public on Sep 17, 2014
Title Liver_90
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 26
gender: female
bmi: 34.743
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 0.76756592
cg00001583 0.059602098
cg00002028 0.059511648
cg00002719 0.11907632
cg00002837 0.407074839
cg00003202 0.027647508
cg00003287 0.236689285
cg00007036 0.956017792
cg00007898 0.049038992
cg00008004 0.14671908
cg00008647 0.1455852
cg00009292 0.121934469
cg00011717 0.918374465
cg00014168 0.47488595
cg00015286 0.766312363
cg00016238 0.875346052
cg00017221 0.134187044
cg00017437 0.147990797
cg00021123 0.757879203
cg00021576 0.105744597

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504946_5822791012_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504946_5822791012_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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