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Sample GSM1606942 Query DataSets for GSM1606942
Status Public on May 19, 2015
Title AOCS_147_ICGC_DBPC_20130205_166
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 GSM6483125
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.259233624
cg00000108 0.920505781
cg00000109 0.820096323
cg00000165 0.720692275
cg00000236 0.783833179
cg00000289 0.430829437
cg00000292 0.4095212
cg00000321 0.540915739
cg00000363 0.144227945
cg00000622 0.01559393
cg00000658 0.835750622
cg00000714 0.090722908
cg00000721 0.859936889
cg00000734 0.075069228
cg00000769 0.029533538
cg00000807 0.811045218
cg00000884 0.826695796
cg00000905 0.180961988
cg00000924 0.648514781
cg00000948 0.888983891

Total number of rows: 485005

Table truncated, full table size 10848 Kbytes.

Supplementary file Size Download File type/resource
GSM1606942_9341679080_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606942_9341679080_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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