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Sample GSM1606893 Query DataSets for GSM1606893
Status Public on May 19, 2015
Title AOCS_093_ICGC_DBPC_20130205_064
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 GSM6483095
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.351350423
cg00000108 0.931644167
cg00000109 0.834682824
cg00000165 0.460551412
cg00000236 0.837173871
cg00000289 0.583787765
cg00000292 0.717782387
cg00000321 0.256520362
cg00000363 0.211302796
cg00000622 0.025288562
cg00000658 0.783745862
cg00000714 0.109948438
cg00000721 0.905807194
cg00000734 0.071502082
cg00000769 0.022365619
cg00000807 0.749272199
cg00000884 0.806471609
cg00000905 0.111813121
cg00000924 0.382430417
cg00000948 0.774849905

Total number of rows: 485005

Table truncated, full table size 10852 Kbytes.

Supplementary file Size Download File type/resource
GSM1606893_9298768178_R04C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606893_9298768178_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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