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Sample GSM1606964 Query DataSets for GSM1606964
Status Public on May 19, 2015
Title AOCS_169_ICGC_DBDE_20131003_006
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 GSM6483139

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.35983399
cg00000108 0.859306752
cg00000109 0.7723944
cg00000165 0.392581278
cg00000236 0.731358697
cg00000289 0.278915908
cg00000292 0.659565047
cg00000321 0.334278551
cg00000363 0.287825747
cg00000622 0.021574422
cg00000658 0.81823454
cg00000714 0.147251794
cg00000721 0.77120341
cg00000734 0.064994175
cg00000769 0.021318194
cg00000807 0.82628675
cg00000884 0.646630569
cg00000905 0.242684476
cg00000924 0.51190136
cg00000948 0.92943805

Total number of rows: 485005

Table truncated, full table size 10753 Kbytes.

Supplementary file Size Download File type/resource
GSM1606964_9445229158_R02C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606964_9445229158_R02C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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