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Sample GSM1606868 Query DataSets for GSM1606868
Status Public on May 19, 2015
Title AOCS_064_ICGC_DBPC_20130205_026
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 0.102477279
cg00000108 0.931088819
cg00000109 0.871807422
cg00000165 0.847436488
cg00000236 0.869766713
cg00000289 0.623322487
cg00000292 0.718388469
cg00000321 0.439169807
cg00000363 0.145109163
cg00000622 0.012268105
cg00000658 0.788086624
cg00000714 0.080834632
cg00000721 0.936378711
cg00000734 0.071192304
cg00000769 0.054662871
cg00000807 0.867749348
cg00000884 0.819014644
cg00000905 0.179254998
cg00000924 0.119315341
cg00000948 0.838801284

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606868_9298768174_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606868_9298768174_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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