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Sample GSM1606878 Query DataSets for GSM1606878
Status Public on May 19, 2015
Title AOCS_081_ICGC_DBPC_20130205_043
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 GSM6483086

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.244176228
cg00000108 0.931146671
cg00000109 0.832196708
cg00000165 0.251048967
cg00000236 0.859507408
cg00000289 0.506658562
cg00000292 0.803952703
cg00000321 0.590320094
cg00000363 0.153938262
cg00000622 0.021462113
cg00000658 0.795228355
cg00000714 0.102460253
cg00000721 0.960578674
cg00000734 0.071450128
cg00000769 0.036026878
cg00000807 0.837359098
cg00000884 0.799485521
cg00000905 0.118651055
cg00000924 0.450542503
cg00000948 0.520602851

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606878_9298768174_R01C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606878_9298768174_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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