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Sample GSM1606956 Query DataSets for GSM1606956
Status Public on May 19, 2015
Title AOCS_163_ICGC_DBDE_20130904_017
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 GSM6483135

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.161179928
cg00000108 0.919422929
cg00000109 0.770365374
cg00000165 0.172045861
cg00000236 0.714525575
cg00000289 0.439870169
cg00000292 0.583551785
cg00000321 0.13891909
cg00000363 0.09511142
cg00000622 0.021778622
cg00000658 0.805272239
cg00000714 0.056963396
cg00000721 0.939738137
cg00000734 0.063647794
cg00000769 0.015647185
cg00000807 0.819895301
cg00000884 0.738018714
cg00000905 0.164230557
cg00000924 0.563287492
cg00000948 0.881033606

Total number of rows: 485005

Table truncated, full table size 10846 Kbytes.

Supplementary file Size Download File type/resource
GSM1606956_9445229094_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606956_9445229094_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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