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Sample GSM1606958 Query DataSets for GSM1606958
Status Public on May 19, 2015
Title AOCS_165_ICGC_DBDE_20130904_019
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 GSM6483137

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.399668689
cg00000108 0.908959755
cg00000109 0.845577145
cg00000165 0.218897505
cg00000236 0.806785219
cg00000289 0.645978966
cg00000292 0.652178191
cg00000321 0.494875618
cg00000363 0.106517413
cg00000622 0.015183151
cg00000658 0.793361116
cg00000714 0.116742822
cg00000721 0.904420746
cg00000734 0.069762643
cg00000769 0.051993137
cg00000807 0.786137143
cg00000884 0.860633801
cg00000905 0.089381486
cg00000924 0.560816404
cg00000948 0.863957871

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606958_9445229158_R02C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606958_9445229158_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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