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Sample GSM1606896 Query DataSets for GSM1606896
Status Public on May 19, 2015
Title AOCS_095_ICGC_DBPC_20130205_068
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 0.101397586
cg00000108 0.916348852
cg00000109 0.873100201
cg00000165 0.488907328
cg00000236 0.852824363
cg00000289 0.451792105
cg00000292 0.901191724
cg00000321 0.161322952
cg00000363 0.097388203
cg00000622 0.021792068
cg00000658 0.822891829
cg00000714 0.055735437
cg00000721 0.917324538
cg00000734 0.070174543
cg00000769 0.017635191
cg00000807 0.898351706
cg00000884 0.756371718
cg00000905 0.114141879
cg00000924 0.058303032
cg00000948 0.60801708

Total number of rows: 485005

Table truncated, full table size 10849 Kbytes.

Supplementary file Size Download File type/resource
GSM1606896_9341679070_R03C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606896_9341679070_R03C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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