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Sample GSM1606881 Query DataSets for GSM1606881
Status Public on May 19, 2015
Title AOCS_085_ICGC_DBPC_20130205_049
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 GSM6483089

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.291488061
cg00000108 0.85856616
cg00000109 0.705470535
cg00000165 0.284977752
cg00000236 0.743324002
cg00000289 0.348327021
cg00000292 0.608910834
cg00000321 0.216405001
cg00000363 0.193580916
cg00000622 0.020580352
cg00000658 0.794168189
cg00000714 0.126929802
cg00000721 0.864180742
cg00000734 0.082116915
cg00000769 0.046713863
cg00000807 0.878994405
cg00000884 0.711908747
cg00000905 0.160523053
cg00000924 0.562010771
cg00000948 0.708467892

Total number of rows: 485005

Table truncated, full table size 10847 Kbytes.

Supplementary file Size Download File type/resource
GSM1606881_9298768174_R04C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606881_9298768174_R04C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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