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Sample GSM1606872 Query DataSets for GSM1606872
Status Public on May 19, 2015
Title AOCS_075_ICGC_DBPC_20130205_033
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 GSM6483082

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.282033325
cg00000108 0.894418583
cg00000109 0.868622513
cg00000165 0.235345264
cg00000236 0.853295523
cg00000289 0.474307054
cg00000292 0.565362615
cg00000321 0.281717154
cg00000363 0.099410588
cg00000622 0.020363917
cg00000658 0.82208512
cg00000714 0.096815069
cg00000721 0.908002932
cg00000734 0.059947671
cg00000769 0.04492565
cg00000807 0.781495413
cg00000884 0.823499917
cg00000905 0.096730432
cg00000924 0.597418401
cg00000948 0.766937589

Total number of rows: 485005

Table truncated, full table size 10849 Kbytes.

Supplementary file Size Download File type/resource
GSM1606872_9298768174_R03C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606872_9298768174_R03C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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