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Sample GSM1606862 Query DataSets for GSM1606862
Status Public on May 19, 2015
Title AOCS_057_ICGC_DBPC_20130205_015
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 GSM6483074
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.293428698
cg00000108 0.888045858
cg00000109 0.795838445
cg00000165 0.456495556
cg00000236 0.799908234
cg00000289 0.32502072
cg00000292 0.860094652
cg00000321 0.445206181
cg00000363 0.292005489
cg00000622 0.015356486
cg00000658 0.793148158
cg00000714 0.107987193
cg00000721 0.850105996
cg00000734 0.067701126
cg00000769 0.030041408
cg00000807 0.855943512
cg00000884 0.747151431
cg00000905 0.135350801
cg00000924 0.35732263
cg00000948 0.858153723

Total number of rows: 485005

Table truncated, full table size 10847 Kbytes.

Supplementary file Size Download File type/resource
GSM1606862_9305216078_R01C02_Grn.idat.gz 3.9 Mb (ftp)(http) IDAT
GSM1606862_9305216078_R01C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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