GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1606961 Query DataSets for GSM1606961
Status Public on May 19, 2015
Title AOCS_167_ICGC_DBDE_20130904_027
Sample type genomic
Source name Tumourmetastasistodistantlocation
Organism Homo sapiens
Characteristics gender: Female
tissue: Tumourmetastasistodistantlocation
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 GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.129980355
cg00000108 0.938397538
cg00000109 0.900757483
cg00000165 0.459549449
cg00000236 0.796316957
cg00000289 0.481959907
cg00000292 0.817998509
cg00000321 0.325922489
cg00000363 0.125526264
cg00000622 0.020139004
cg00000658 0.791787566
cg00000714 0.086673142
cg00000721 0.929501258
cg00000734 0.073146948
cg00000769 0.031729747
cg00000807 0.847735623
cg00000884 0.80180762
cg00000905 0.095705616
cg00000924 0.19199135
cg00000948 0.670832081

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606961_9445229158_R05C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606961_9445229158_R05C01_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