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Sample GSM1606905 Query DataSets for GSM1606905
Status Public on May 19, 2015
Title AOCS_109_ICGC_DBPC_20130205_086
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 GSM6483104

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.114659706
cg00000108 0.904121804
cg00000109 0.851960125
cg00000165 0.516955778
cg00000236 0.726089503
cg00000289 0.450216904
cg00000292 0.76165318
cg00000321 0.331247228
cg00000363 0.134057559
cg00000622 0.025206727
cg00000658 0.777809802
cg00000714 0.08942459
cg00000721 0.88385806
cg00000734 0.066640479
cg00000769 0.037269848
cg00000807 0.825374723
cg00000884 0.758818535
cg00000905 0.133166808
cg00000924 0.492755024
cg00000948 0.766690014

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606905_9298768178_R04C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606905_9298768178_R04C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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