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Sample GSM1606925 Query DataSets for GSM1606925
Status Public on May 19, 2015
Title AOCS_134_ICGC_DBPC_20130205_134
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 0.272645784
cg00000108 0.932229435
cg00000109 0.892938478
cg00000165 0.712452233
cg00000236 0.839838815
cg00000289 0.504294301
cg00000292 0.656940935
cg00000321 0.397352132
cg00000363 0.183070444
cg00000622 0.018395846
cg00000658 0.802734057
cg00000714 0.125760646
cg00000721 0.922533073
cg00000734 0.069880865
cg00000769 0.042443599
cg00000807 0.884076726
cg00000884 0.840250569
cg00000905 0.10233325
cg00000924 0.272544596
cg00000948 0.876392727

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606925_9341679075_R04C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606925_9341679075_R04C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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