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Sample GSM1606889 Query DataSets for GSM1606889
Status Public on May 19, 2015
Title AOCS_092_ICGC_DBPC_20130205_059
Sample type genomic
Source name Ascites
Organism Homo sapiens
Characteristics gender: Female
tissue: Ascites
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 0.114631324
cg00000108 0.919877447
cg00000109 0.828318118
cg00000165 0.162337958
cg00000236 0.891152142
cg00000289 0.596760382
cg00000292 0.492720321
cg00000321 0.366279276
cg00000363 0.443168667
cg00000622 0.013022387
cg00000658 0.816703338
cg00000714 0.085778646
cg00000721 0.95091862
cg00000734 0.07020152
cg00000769 0.027843955
cg00000807 0.895421777
cg00000884 0.864959169
cg00000905 0.112213873
cg00000924 0.631998995
cg00000948 0.893877791

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606889_9298768178_R02C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606889_9298768178_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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