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Sample GSM1606947 Query DataSets for GSM1606947
Status Public on May 19, 2015
Title AOCS_152_ICGC_DBPC_20130205_174
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 GSM6483128
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.108853475
cg00000108 0.938986629
cg00000109 0.870425897
cg00000165 0.194413242
cg00000236 0.822536515
cg00000289 0.493831497
cg00000292 0.853298049
cg00000321 0.149016665
cg00000363 0.171419472
cg00000622 0.023840088
cg00000658 0.810984934
cg00000714 0.107530045
cg00000721 0.933529195
cg00000734 0.072024066
cg00000769 0.022781853
cg00000807 0.868358964
cg00000884 0.797300044
cg00000905 0.118898797
cg00000924 0.396625024
cg00000948 0.844569363

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606947_9341679082_R05C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606947_9341679082_R05C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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