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Sample GSM1606887 Query DataSets for GSM1606887
Status Public on May 19, 2015
Title AOCS_091_ICGC_DBPC_20130205_056
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 0.218105402
cg00000108 0.902113637
cg00000109 0.821835623
cg00000165 0.643214066
cg00000236 0.849598234
cg00000289 0.48455424
cg00000292 0.816811593
cg00000321 0.318309337
cg00000363 0.235742059
cg00000622 0.021758387
cg00000658 0.792746344
cg00000714 0.112239906
cg00000721 0.940405755
cg00000734 0.088928337
cg00000769 0.020062322
cg00000807 0.856499882
cg00000884 0.808593731
cg00000905 0.125809828
cg00000924 0.200661115
cg00000948 0.584007664

Total number of rows: 485005

Table truncated, full table size 10848 Kbytes.

Supplementary file Size Download File type/resource
GSM1606887_9341679080_R06C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606887_9341679080_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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