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Sample GSM1606920 Query DataSets for GSM1606920
Status Public on May 19, 2015
Title AOCS_128_ICGC_DBPC_20130205_112
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 GSM6483116
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.266326146
cg00000108 0.882796784
cg00000109 0.757558873
cg00000165 0.381998262
cg00000236 0.840712463
cg00000289 0.415689805
cg00000292 0.672756144
cg00000321 0.485247055
cg00000363 0.217908051
cg00000622 0.014411384
cg00000658 0.808326319
cg00000714 0.124584585
cg00000721 0.894059643
cg00000734 0.075006729
cg00000769 0.026457815
cg00000807 0.845539324
cg00000884 0.721631555
cg00000905 0.151554037
cg00000924 0.596854834
cg00000948 0.84176743

Total number of rows: 485005

Table truncated, full table size 10848 Kbytes.

Supplementary file Size Download File type/resource
GSM1606920_9341679070_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606920_9341679070_R06C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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