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Sample GSM1505173 Query DataSets for GSM1505173
Status Public on Sep 17, 2014
Title VAT_70
Sample type genomic
Source name severely obese patient_visceral adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 41
bmi: 38.754
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 5822791018_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 0.735189733
cg00001583 0.102106333
cg00002028 0.055119209
cg00002719 0.189196963
cg00002837 0.346161464
cg00003202 0.022614998
cg00003287 0.167429231
cg00007036 0.95353085
cg00007898 0.064490507
cg00008004 0.182308561
cg00008647 0.109563028
cg00009292 0.149068178
cg00011717 0.893201438
cg00014168 0.59508692
cg00015286 0.736438018
cg00016238 0.821802709
cg00017221 0.088376803
cg00017437 0.100691632
cg00021123 0.71676624
cg00021576 0.107238723

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505173_5822791018_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505173_5822791018_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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