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Sample GSM1606909 Query DataSets for GSM1606909
Status Public on May 19, 2015
Title AOCS_114_ICGC_DBPC_20130205_090
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 GSM6483108
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.140626236
cg00000108 0.917156813
cg00000109 0.766782887
cg00000165 0.144194832
cg00000236 0.806965801
cg00000289 0.458595335
cg00000292 0.898091799
cg00000321 0.17940438
cg00000363 0.116009726
cg00000622 0.022499606
cg00000658 0.767798615
cg00000714 0.087919149
cg00000721 0.938608018
cg00000734 0.074421281
cg00000769 0.069986455
cg00000807 0.84896886
cg00000884 0.785468398
cg00000905 0.133175814
cg00000924 0.223984892
cg00000948 0.904374304

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606909_9298768178_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606909_9298768178_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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