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Sample GSM1606968 Query DataSets for GSM1606968
Status Public on May 19, 2015
Title AOCS_171_ICGC_DBDE_20131003_012
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 0.176959769
cg00000108 0.931860775
cg00000109 0.8517305
cg00000165 0.327369211
cg00000236 0.853720997
cg00000289 0.540249541
cg00000292 0.818380486
cg00000321 0.496149198
cg00000363 0.168398187
cg00000622 0.023202457
cg00000658 0.807086899
cg00000714 0.098759211
cg00000721 0.914479513
cg00000734 0.075392432
cg00000769 0.031585169
cg00000807 0.874626032
cg00000884 0.837376459
cg00000905 0.109332672
cg00000924 0.340930998
cg00000948 0.820827011

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606968_9445229158_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606968_9445229158_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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