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Sample GSM1606902 Query DataSets for GSM1606902
Status Public on May 19, 2015
Title AOCS_106_ICGC_DBPC_20130607_003
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 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 GSM6483101
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.179140082
cg00000108 0.937298453
cg00000109 0.869403959
cg00000165 0.600314483
cg00000236 0.829324862
cg00000289 0.516741429
cg00000292 0.835448231
cg00000321 0.682018335
cg00000363 0.091728599
cg00000622 0.020937157
cg00000658 0.812467742
cg00000714 0.096392559
cg00000721 0.927316054
cg00000734 0.071644345
cg00000769 0.025166654
cg00000807 0.867827768
cg00000884 0.784892209
cg00000905 0.106036099
cg00000924 0.276299074
cg00000948 0.870156905

Total number of rows: 485005

Table truncated, full table size 10849 Kbytes.

Supplementary file Size Download File type/resource
GSM1606902_9341679070_R06C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606902_9341679070_R06C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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