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Sample GSM1606860 Query DataSets for GSM1606860
Status Public on May 19, 2015
Title AOCS_055_ICGC_DBPC_20130205_011
Sample type genomic
Source name PrimaryTumour
Organism Homo sapiens
Characteristics gender: Female
tissue: PrimaryTumour
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 Aug 19, 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 GSM6483072

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.19629772
cg00000108 0.925611736
cg00000109 0.900328587
cg00000165 0.671513106
cg00000236 0.783558755
cg00000289 0.465158441
cg00000292 0.583750968
cg00000321 0.638585026
cg00000363 0.142673098
cg00000622 0.023586801
cg00000658 0.824665009
cg00000714 0.074355635
cg00000721 0.906317284
cg00000734 0.073361049
cg00000769 0.042905393
cg00000807 0.799598152
cg00000884 0.795461119
cg00000905 0.125752315
cg00000924 0.522100417
cg00000948 0.861967116

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606860_9305216078_R05C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606860_9305216078_R05C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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