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Sample GSM1606916 Query DataSets for GSM1606916
Status Public on May 19, 2015
Title AOCS_123_ICGC_DBPC_20130607_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 GSM6483112

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.362740089
cg00000108 0.923553185
cg00000109 0.819698728
cg00000165 0.271806661
cg00000236 0.871622898
cg00000289 0.523592938
cg00000292 0.746756289
cg00000321 0.320595208
cg00000363 0.169067698
cg00000622 0.029922413
cg00000658 0.783527745
cg00000714 0.11653565
cg00000721 0.934060879
cg00000734 0.078499511
cg00000769 0.025628727
cg00000807 0.830399795
cg00000884 0.768338219
cg00000905 0.112428321
cg00000924 0.45912098
cg00000948 0.787958523

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606916_9341679070_R05C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606916_9341679070_R05C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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