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Sample GSM1606952 Query DataSets for GSM1606952
Status Public on May 19, 2015
Title AOCS_159_ICGC_DBDE_20130904_013
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 Aug 19, 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 GSM6483132

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.187450898
cg00000108 0.928081206
cg00000109 0.880368222
cg00000165 0.190667615
cg00000236 0.888546016
cg00000289 0.570541181
cg00000292 0.695616705
cg00000321 0.323152386
cg00000363 0.112962883
cg00000622 0.014565316
cg00000658 0.798118784
cg00000714 0.073942636
cg00000721 0.938484648
cg00000734 0.065651946
cg00000769 0.041891776
cg00000807 0.81245288
cg00000884 0.808324163
cg00000905 0.081217917
cg00000924 0.466298505
cg00000948 0.835171753

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606952_9445229094_R02C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606952_9445229094_R02C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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