GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1505072 Query DataSets for GSM1505072
Status Public on Sep 17, 2014
Title SAT_51
Sample type genomic
Source name severely obese patient_Subqutaneous adipose tissue
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 59
bmi: 46.47531231
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 0.634252621
cg00001583 0.081476217
cg00002028 0.08424746
cg00002719 0.085712826
cg00002837 0.325277554
cg00003202 0.0342368
cg00003287 0.222123307
cg00007036 0.954839726
cg00007898 0.054057811
cg00008004 0.142274102
cg00008647 0.093683461
cg00009292 0.14266119
cg00011717 0.899064878
cg00014168 0.646228085
cg00015286 0.60672037
cg00016238 0.884128125
cg00017221 0.055016188
cg00017437 0.101464678
cg00021123 0.782736615
cg00021576 0.066931538

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505072_5822943015_R06C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505072_5822943015_R06C01_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