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Sample GSM1606861 Query DataSets for GSM1606861
Status Public on May 19, 2015
Title AOCS_056_ICGC_DBPC_20130205_013
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 GSM6483073

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.19300034
cg00000108 0.922008784
cg00000109 0.861055372
cg00000165 0.261890811
cg00000236 0.781621983
cg00000289 0.491140181
cg00000292 0.812249942
cg00000321 0.715530519
cg00000363 0.114422164
cg00000622 0.02303532
cg00000658 0.823129113
cg00000714 0.071138822
cg00000721 0.91195997
cg00000734 0.070738302
cg00000769 0.060213591
cg00000807 0.914059946
cg00000884 0.79612739
cg00000905 0.12274456
cg00000924 0.175706271
cg00000948 0.856899067

Total number of rows: 485005

Table truncated, full table size 10849 Kbytes.

Supplementary file Size Download File type/resource
GSM1606861_9305216078_R06C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606861_9305216078_R06C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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