GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1505057 Query DataSets for GSM1505057
Status Public on Sep 17, 2014
Title SAT_100
Sample type genomic
Source name severely obese patient_Subqutaneous adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 32
bmi: 51.17155556
tissue: Subqutaneous 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 SAT 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)
GSE61450 Epigenome analysis of the human subqutaneous 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 0.726356927
cg00001583 0.062387984
cg00002028 0.042994881
cg00002719 0.072418979
cg00002837 0.291070655
cg00003202 0.026630151
cg00003287 0.238145203
cg00007036 0.933791467
cg00007898 0.04444986
cg00008004 0.113340664
cg00008647 0.138885027
cg00009292 0.166484306
cg00011717 0.929739065
cg00014168 0.638407555
cg00015286 0.802073052
cg00016238 0.87062619
cg00017221 0.076064081
cg00017437 0.068984407
cg00021123 0.611911834
cg00021576 0.054613449

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505057_5822791028_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505057_5822791028_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap