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Sample GSM1504989 Query DataSets for GSM1504989
Status Public on Sep 17, 2014
Title Liver_119
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 35
gender: female
bmi: 30.694
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 0.634357086
cg00001583 0.07448152
cg00002028 0.083428724
cg00002719 0.125200116
cg00002837 0.409909855
cg00003202 0.031206491
cg00003287 0.277787023
cg00007036 0.941856053
cg00007898 0.052574975
cg00008004 0.13579993
cg00008647 0.150769074
cg00009292 0.146977458
cg00011717 0.943865742
cg00014168 0.477663749
cg00015286 0.622985957
cg00016238 0.794215737
cg00017221 0.109925004
cg00017437 0.0940083
cg00021123 0.747492368
cg00021576 0.080025147

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504989_5822943019_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504989_5822943019_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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