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Sample GSM1606910 Query DataSets for GSM1606910
Status Public on May 19, 2015
Title AOCS_115_ICGC_DBPC_20130205_092
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 GSM6483109

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.135611903
cg00000108 0.934211908
cg00000109 0.850852574
cg00000165 0.401793073
cg00000236 0.852295522
cg00000289 0.579389863
cg00000292 0.866956222
cg00000321 0.726657314
cg00000363 0.09476048
cg00000622 0.020964628
cg00000658 0.782963576
cg00000714 0.106683852
cg00000721 0.921779604
cg00000734 0.065861992
cg00000769 0.030216573
cg00000807 0.857176297
cg00000884 0.804328207
cg00000905 0.101789619
cg00000924 0.248227636
cg00000948 0.702006558

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606910_9341679075_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606910_9341679075_R01C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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