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Sample GSM1606919 Query DataSets for GSM1606919
Status Public on May 19, 2015
Title AOCS_126_ICGC_DBPC_20130205_110
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 GSM6483115
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.198424421
cg00000108 0.922813684
cg00000109 0.765512552
cg00000165 0.402639559
cg00000236 0.79769691
cg00000289 0.498320554
cg00000292 0.751661704
cg00000321 0.302281881
cg00000363 0.126597072
cg00000622 0.018531736
cg00000658 0.805857919
cg00000714 0.083367209
cg00000721 0.895744621
cg00000734 0.079376801
cg00000769 0.026394698
cg00000807 0.76648783
cg00000884 0.801364505
cg00000905 0.098221451
cg00000924 0.473995395
cg00000948 0.702494721

Total number of rows: 485005

Table truncated, full table size 10852 Kbytes.

Supplementary file Size Download File type/resource
GSM1606919_9341679075_R03C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606919_9341679075_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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