GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1505116 Query DataSets for GSM1505116
Status Public on Sep 17, 2014
Title Muscle_125
Sample type genomic
Source name severely obese patient_muscle
Organism Homo sapiens
Characteristics subject status: severely obese patient
gender: female
subject age: 45
bmi: 45.880
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 5822791029_R03C02
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 0.752560085
cg00001583 0.094524108
cg00002028 0.057277039
cg00002719 0.096264256
cg00002837 0.365965743
cg00003202 0.024498206
cg00003287 0.345061325
cg00007036 0.940199129
cg00007898 0.055031458
cg00008004 0.161770626
cg00008647 0.064438483
cg00009292 0.18212693
cg00011717 0.89025521
cg00014168 0.731990939
cg00015286 0.890735383
cg00016238 0.849319535
cg00017221 0.077887206
cg00017437 0.077681668
cg00021123 0.617194064
cg00021576 0.069733588

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1505116_5822791029_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1505116_5822791029_R03C02_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