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Sample GSM1606891 Query DataSets for GSM1606891
Status Public on May 19, 2015
Title AOCS_093_ICGC_DBDE_20131003_001
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 0.196905215
cg00000108 0.94533648
cg00000109 0.835076774
cg00000165 0.41468264
cg00000236 0.872527133
cg00000289 0.43786349
cg00000292 0.7782526
cg00000321 0.160939891
cg00000363 0.12222207
cg00000622 0.017370145
cg00000658 0.837644083
cg00000714 0.051918438
cg00000721 0.894271727
cg00000734 0.063965921
cg00000769 0.046027479
cg00000807 0.893169957
cg00000884 0.724665723
cg00000905 0.148601483
cg00000924 0.100785595
cg00000948 0.776594434

Total number of rows: 485005

Table truncated, full table size 10788 Kbytes.

Supplementary file Size Download File type/resource
GSM1606891_9445229078_R06C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606891_9445229078_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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