GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1505143 Query DataSets for GSM1505143
Status Public on Sep 17, 2014
Title Muscle_98
Sample type genomic
Source name severely obese patient_muscle
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: male
subject age: 54
bmi: 38.552
tissue: muscle
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 5822943029_R04C02
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)
GSE61452 Epigenome analysis of the human muscle
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 0.765409455
cg00001583 0.12967147
cg00002028 0.076083086
cg00002719 0.145581679
cg00002837 0.381972508
cg00003202 0.026247106
cg00003287 0.404130757
cg00007036 0.953510844
cg00007898 0.026569021
cg00008004 0.131147896
cg00008647 0.086244619
cg00009292 0.143260685
cg00011717 0.866486654
cg00014168 0.657661611
cg00015286 0.712295178
cg00016238 0.758306185
cg00017221 0.088334279
cg00017437 0.091573384
cg00021123 0.725753342
cg00021576 0.06121427

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505143_5822943029_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505143_5822943029_R04C02_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