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Sample GSM1606941 Query DataSets for GSM1606941
Status Public on May 19, 2015
Title AOCS_146_ICGC_DBPC_20130205_164
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 GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.376320208
cg00000108 0.892021935
cg00000109 0.764352497
cg00000165 0.42606351
cg00000236 0.781144325
cg00000289 0.354881276
cg00000292 0.80357681
cg00000321 0.517424008
cg00000363 0.450429589
cg00000622 0.011137725
cg00000658 0.774791829
cg00000714 0.093285307
cg00000721 0.828963023
cg00000734 0.05905935
cg00000769 0.029012083
cg00000807 0.831742998
cg00000884 0.721185986
cg00000905 0.162935615
cg00000924 0.469159765
cg00000948 0.614665711

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606941_9341679082_R01C02_Grn.idat.gz 3.9 Mb (ftp)(http) IDAT
GSM1606941_9341679082_R01C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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