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Sample GSM1606857 Query DataSets for GSM1606857
Status Public on May 19, 2015
Title AOCS_005_ICGC_DBPC_20130205_006
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 GSM6483070

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.154211305
cg00000108 0.93492447
cg00000109 0.887826045
cg00000165 0.283291829
cg00000236 0.858348494
cg00000289 0.581162227
cg00000292 0.76737587
cg00000321 0.616198305
cg00000363 0.108001645
cg00000622 0.021041935
cg00000658 0.804365456
cg00000714 0.138490955
cg00000721 0.941067095
cg00000734 0.061090478
cg00000769 0.03933121
cg00000807 0.817004974
cg00000884 0.830105609
cg00000905 0.085616588
cg00000924 0.5771012
cg00000948 0.859846451

Total number of rows: 485005

Table truncated, full table size 10852 Kbytes.

Supplementary file Size Download File type/resource
GSM1606857_9305216078_R02C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606857_9305216078_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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