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Sample GSM1606962 Query DataSets for GSM1606962
Status Public on May 19, 2015
Title AOCS_167_ICGC_DBDE_20130904_028
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 Nov 09, 2022
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
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.177767507
cg00000108 0.935957298
cg00000109 0.903839608
cg00000165 0.507100237
cg00000236 0.819348745
cg00000289 0.589516438
cg00000292 0.8421453
cg00000321 0.288169713
cg00000363 0.182595499
cg00000622 0.021150959
cg00000658 0.823045788
cg00000714 0.100025572
cg00000721 0.924437503
cg00000734 0.083352724
cg00000769 0.024539857
cg00000807 0.852795577
cg00000884 0.796351062
cg00000905 0.106531362
cg00000924 0.27723163
cg00000948 0.701152522

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606962_9445229158_R06C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606962_9445229158_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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