GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1606924 Query DataSets for GSM1606924
Status Public on May 19, 2015
Title AOCS_133_ICGC_DBPC_20130607_002
Sample type genomic
Source name PrimaryTumour
Organism Homo sapiens
Characteristics gender: Female
tissue: PrimaryTumour
cell type: high grade serous ovarian cancer
Treatment protocol NA
Growth protocol NA
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from fresh frozen tissues using AllPrep DNA/RNA Mini Kit (Qiagen). Genomic DNA (500ng) was bisulfite converted using EZ DNA methylation Kit (Zimo Research) following the manufacturer’s protocol with modification for Illumina Infinium Methyaltion arrays
Label cy3/cy5
Label protocol Bisulfite converted genomic DNAwas whole genome amplified and labeled using Illumina protocol
Hybridization protocol Samples were hybridized to Infinium Human Methylation 450K BeadChips (Illumina) according to the manufacturer’s protocol.
Scan protocol Arrays were scanned on Iscan (Illumina)
Description Raw data for arrays used for methylation analysis
Data processing Data was background corrected, normalized to internal controls and QC was performed at the probe and sample level. COMBAT was used to remove batch effects (Johnson et al., 2007)
Submission date Feb 10, 2015
Last update date Nov 09, 2022
Contact name Ann-Marie Patch
Organization name QIMR Berghofer Medical Research Institute
Street address 300 Herston Road
City Herston
State/province QLD
ZIP/Postal code 4006
Country Australia
Platform ID GPL13534
Series (2)
GSE65820 Whole genome characterisation of chemoresistant ovarian cancer [Illumina_450K_Methylation]
GSE65821 Whole genome characterisation of chemoresistant ovarian cancer
Reanalyzed by GSM6483120
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.19032653
cg00000108 0.92056723
cg00000109 0.843409267
cg00000165 0.153605325
cg00000236 0.854240828
cg00000289 0.453117735
cg00000292 0.528155034
cg00000321 0.575404216
cg00000363 0.132100142
cg00000622 0.028338878
cg00000658 0.804504686
cg00000714 0.150298684
cg00000721 0.941356218
cg00000734 0.077070195
cg00000769 0.052006781
cg00000807 0.839721927
cg00000884 0.839560835
cg00000905 0.082972373
cg00000924 0.265832207
cg00000948 0.843650578

Total number of rows: 485005

Table truncated, full table size 10841 Kbytes.

Supplementary file Size Download File type/resource
GSM1606924_9445229078_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606924_9445229078_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