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Sample GSM1606883 Query DataSets for GSM1606883
Status Public on May 19, 2015
Title AOCS_086_ICGC_DBPC_20130205_052
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 GSM6483090
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.250888626
cg00000108 0.918266828
cg00000109 0.887010033
cg00000165 0.491062919
cg00000236 0.818852696
cg00000289 0.521813534
cg00000292 0.838660979
cg00000321 0.498457455
cg00000363 0.298730882
cg00000622 0.024148868
cg00000658 0.812862817
cg00000714 0.103168322
cg00000721 0.864100567
cg00000734 0.073421686
cg00000769 0.043118345
cg00000807 0.804454924
cg00000884 0.674213784
cg00000905 0.165320553
cg00000924 0.51765498
cg00000948 0.794182182

Total number of rows: 485005

Table truncated, full table size 10846 Kbytes.

Supplementary file Size Download File type/resource
GSM1606883_9298768174_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606883_9298768174_R06C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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