GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1504983 Query DataSets for GSM1504983
Status Public on Sep 17, 2014
Title Liver_83
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 36
gender: female
bmi: 44.067
tissue: liver
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 Liver 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)
GSE61446 Epigenome analysis of the human liver
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 0.72610843
cg00001583 0.074531325
cg00002028 0.090299771
cg00002719 0.201190505
cg00002837 0.508391522
cg00003202 0.0548366
cg00003287 0.152195737
cg00007036 0.947287306
cg00007898 0.062295297
cg00008004 0.187437053
cg00008647 0.302602328
cg00009292 0.150172063
cg00011717 0.926751955
cg00014168 0.541195309
cg00015286 0.803417293
cg00016238 0.723837311
cg00017221 0.100703288
cg00017437 0.117387395
cg00021123 0.858477325
cg00021576 0.071104103

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504983_5822943014_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504983_5822943014_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