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Sample GSM1606864 Query DataSets for GSM1606864
Status Public on May 19, 2015
Title AOCS_059_ICGC_DBPC_20130205_019
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 GSM6483076

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.222638969
cg00000108 0.918864118
cg00000109 0.861335306
cg00000165 0.293849583
cg00000236 0.901337977
cg00000289 0.583301001
cg00000292 0.609342554
cg00000321 0.310040239
cg00000363 0.17682991
cg00000622 0.02486501
cg00000658 0.821800496
cg00000714 0.099820078
cg00000721 0.897455844
cg00000734 0.071080576
cg00000769 0.048610188
cg00000807 0.829782565
cg00000884 0.861680305
cg00000905 0.114998919
cg00000924 0.481788895
cg00000948 0.860776775

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606864_9305216078_R03C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606864_9305216078_R03C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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