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Sample GSM1606912 Query DataSets for GSM1606912
Status Public on May 19, 2015
Title AOCS_117_ICGC_DBPC_20130714_001
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 0.242850862
cg00000108 0.901180927
cg00000109 0.897538341
cg00000165 0.656061845
cg00000236 0.8096446
cg00000289 0.493047645
cg00000292 0.825166044
cg00000321 0.634332495
cg00000363 0.106374569
cg00000622 0.027462477
cg00000658 0.815012263
cg00000714 0.072823832
cg00000721 0.935162607
cg00000734 0.06040425
cg00000769 0.058127583
cg00000807 0.88157753
cg00000884 0.780413469
cg00000905 0.197724416
cg00000924 0.454398083
cg00000948 0.860128982

Total number of rows: 485005

Table truncated, full table size 10763 Kbytes.

Supplementary file Size Download File type/resource
GSM1606912_9445229078_R02C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606912_9445229078_R02C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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