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Sample GSM1606963 Query DataSets for GSM1606963
Status Public on May 19, 2015
Title AOCS_168_ICGC_DBDE_20131003_004
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 GSM6483138

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.197211442
cg00000108 0.916633116
cg00000109 0.871791038
cg00000165 0.347425966
cg00000236 0.86160686
cg00000289 0.465826762
cg00000292 0.82028776
cg00000321 0.687568372
cg00000363 0.182171151
cg00000622 0.023127772
cg00000658 0.841314676
cg00000714 0.058744938
cg00000721 0.898120834
cg00000734 0.063848459
cg00000769 0.023758571
cg00000807 0.859860078
cg00000884 0.732445851
cg00000905 0.159141788
cg00000924 0.228661961
cg00000948 0.875967434

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606963_9445229158_R01C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606963_9445229158_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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