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Sample GSM1606967 Query DataSets for GSM1606967
Status Public on May 19, 2015
Title AOCS_171_ICGC_DBDE_20131003_011
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 GSM6483140

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.111314052
cg00000108 0.926007445
cg00000109 0.859184868
cg00000165 0.322097347
cg00000236 0.838623793
cg00000289 0.448564543
cg00000292 0.704433689
cg00000321 0.464041391
cg00000363 0.087869174
cg00000622 0.012809066
cg00000658 0.802825736
cg00000714 0.079188339
cg00000721 0.927052998
cg00000734 0.080755084
cg00000769 0.019265732
cg00000807 0.847811935
cg00000884 0.825379331
cg00000905 0.111571653
cg00000924 0.327468008
cg00000948 0.843973774

Total number of rows: 485005

Table truncated, full table size 10852 Kbytes.

Supplementary file Size Download File type/resource
GSM1606967_9445229158_R05C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606967_9445229158_R05C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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