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Sample GSM1606904 Query DataSets for GSM1606904
Status Public on May 19, 2015
Title AOCS_108_ICGC_DBPC_20130607_005
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 GSM6483103
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.177519211
cg00000108 0.920020741
cg00000109 0.811419986
cg00000165 0.380787599
cg00000236 0.829595714
cg00000289 0.437960293
cg00000292 0.564594889
cg00000321 0.55597109
cg00000363 0.113334354
cg00000622 0.028356522
cg00000658 0.827476492
cg00000714 0.115335471
cg00000721 0.900865564
cg00000734 0.085036088
cg00000769 0.027345119
cg00000807 0.809495734
cg00000884 0.769858811
cg00000905 0.171531801
cg00000924 0.309864634
cg00000948 0.700237067

Total number of rows: 485005

Table truncated, full table size 10849 Kbytes.

Supplementary file Size Download File type/resource
GSM1606904_9341679070_R02C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606904_9341679070_R02C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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