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Sample GSM1606965 Query DataSets for GSM1606965
Status Public on May 19, 2015
Title AOCS_170_ICGC_DBDE_20131003_008
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 May 19, 2015
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

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.141344771
cg00000108 0.929027116
cg00000109 0.885400155
cg00000165 0.667511005
cg00000236 0.837144134
cg00000289 0.554581719
cg00000292 0.847566288
cg00000321 0.626140958
cg00000363 0.126174498
cg00000622 0.01667922
cg00000658 0.804359389
cg00000714 0.089690344
cg00000721 0.914311188
cg00000734 0.074238777
cg00000769 0.030192129
cg00000807 0.847811745
cg00000884 0.774006871
cg00000905 0.10586033
cg00000924 0.250818229
cg00000948 0.712638756

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606965_9445229158_R03C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606965_9445229158_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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