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Sample GSM1606922 Query DataSets for GSM1606922
Status Public on May 19, 2015
Title AOCS_131_ICGC_DBPC_20130205_118
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 GSM6483118
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.330483296
cg00000108 0.93863921
cg00000109 0.845244206
cg00000165 0.534452062
cg00000236 0.875535649
cg00000289 0.483022733
cg00000292 0.476433533
cg00000321 0.52580497
cg00000363 0.198014672
cg00000622 0.024750964
cg00000658 0.79851709
cg00000714 0.109701208
cg00000721 0.931413348
cg00000734 0.0717611
cg00000769 0.018980742
cg00000807 0.795560197
cg00000884 0.676528505
cg00000905 0.107376097
cg00000924 0.610675799
cg00000948 0.850486023

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606922_9341679080_R02C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606922_9341679080_R02C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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