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Sample GSM1606885 Query DataSets for GSM1606885
Status Public on May 19, 2015
Title AOCS_088_ICGC_DBPC_20130701_005
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 0.197919194
cg00000108 0.917835228
cg00000109 0.838915265
cg00000165 0.673180836
cg00000236 0.854233378
cg00000289 0.376028887
cg00000292 0.842872401
cg00000321 0.656601106
cg00000363 0.463296792
cg00000622 0.019667048
cg00000658 0.806491613
cg00000714 0.077964462
cg00000721 0.906885794
cg00000734 0.079759267
cg00000769 0.052899048
cg00000807 0.868791505
cg00000884 0.764480924
cg00000905 0.144774622
cg00000924 0.795528253
cg00000948 0.864968763

Total number of rows: 485005

Table truncated, full table size 10826 Kbytes.

Supplementary file Size Download File type/resource
GSM1606885_9445229078_R03C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606885_9445229078_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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