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Sample GSM1505178 Query DataSets for GSM1505178
Status Public on Sep 17, 2014
Title VAT_85
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 65
bmi: 55.432
tissue: visceral adipose tissue
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 5822791019_R05C01
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)
GSE61453 Epigenome analysis of the human visceral adipose tissue
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 0.705160585
cg00001583 0.114871188
cg00002028 0.051915481
cg00002719 0.157604834
cg00002837 0.362352543
cg00003202 0.018928389
cg00003287 0.254411941
cg00007036 0.952739134
cg00007898 0.039337955
cg00008004 0.110016223
cg00008647 0.139254987
cg00009292 0.18680244
cg00011717 0.893133738
cg00014168 0.700758508
cg00015286 0.768952887
cg00016238 0.829792204
cg00017221 0.04321816
cg00017437 0.085019481
cg00021123 0.592270371
cg00021576 0.067267146

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505178_5822791019_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505178_5822791019_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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