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Sample GSM1606880 Query DataSets for GSM1606880
Status Public on May 19, 2015
Title AOCS_084_ICGC_DBPC_20130205_047
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 GSM6483088

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.143195249
cg00000108 0.916830102
cg00000109 0.792022285
cg00000165 0.626074225
cg00000236 0.719455887
cg00000289 0.380056395
cg00000292 0.50780962
cg00000321 0.465579172
cg00000363 0.077952205
cg00000622 0.020653736
cg00000658 0.801269285
cg00000714 0.07423621
cg00000721 0.87260885
cg00000734 0.07978009
cg00000769 0.045267979
cg00000807 0.818073232
cg00000884 0.80661532
cg00000905 0.115711401
cg00000924 0.434772455
cg00000948 0.747987357

Total number of rows: 485005

Table truncated, full table size 10849 Kbytes.

Supplementary file Size Download File type/resource
GSM1606880_9298768174_R03C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606880_9298768174_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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