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Sample GSM1606892 Query DataSets for GSM1606892
Status Public on May 19, 2015
Title AOCS_093_ICGC_DBPC_20130205_062
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 0.146369707
cg00000108 0.925985117
cg00000109 0.907323729
cg00000165 0.543036346
cg00000236 0.855224927
cg00000289 0.535332761
cg00000292 0.805364874
cg00000321 0.350530272
cg00000363 0.109374518
cg00000622 0.017252662
cg00000658 0.801994674
cg00000714 0.075466461
cg00000721 0.950342891
cg00000734 0.07747668
cg00000769 0.050225974
cg00000807 0.876797355
cg00000884 0.78310822
cg00000905 0.113871296
cg00000924 0.085296089
cg00000948 0.680512278

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606892_9298768178_R03C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606892_9298768178_R03C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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