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Sample GSM1606879 Query DataSets for GSM1606879
Status Public on May 19, 2015
Title AOCS_083_ICGC_DBPC_20130205_045
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 GSM6483087

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.240474964
cg00000108 0.924355368
cg00000109 0.828456639
cg00000165 0.22476187
cg00000236 0.819172587
cg00000289 0.54222779
cg00000292 0.601070535
cg00000321 0.219322767
cg00000363 0.196848512
cg00000622 0.023651017
cg00000658 0.785672085
cg00000714 0.098624041
cg00000721 0.906457777
cg00000734 0.078208024
cg00000769 0.04761197
cg00000807 0.845305369
cg00000884 0.729943329
cg00000905 0.095396969
cg00000924 0.377314379
cg00000948 0.87371958

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606879_9298768174_R02C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606879_9298768174_R02C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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