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Sample GSM1505168 Query DataSets for GSM1505168
Status Public on Sep 17, 2014
Title VAT_114
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 49
bmi: 36.332
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 5822791013_R06C02
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 0.673573401
cg00001583 0.098840349
cg00002028 0.077779831
cg00002719 0.115392037
cg00002837 0.306902828
cg00003202 0.026371856
cg00003287 0.276858348
cg00007036 0.946193852
cg00007898 0.065528478
cg00008004 0.154865313
cg00008647 0.114701243
cg00009292 0.18045118
cg00011717 0.88235744
cg00014168 0.611579798
cg00015286 0.732863264
cg00016238 0.902274014
cg00017221 0.135877907
cg00017437 0.07018395
cg00021123 0.680286476
cg00021576 0.091490154

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505168_5822791013_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505168_5822791013_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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