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Sample GSM1606911 Query DataSets for GSM1606911
Status Public on May 19, 2015
Title AOCS_116_ICGC_DBPC_20130205_094
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 GSM6483110

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.476756547
cg00000108 0.919155272
cg00000109 0.889012766
cg00000165 0.408846123
cg00000236 0.820594415
cg00000289 0.622463137
cg00000292 0.625694884
cg00000321 0.516606499
cg00000363 0.237150053
cg00000622 0.021084393
cg00000658 0.816512592
cg00000714 0.105401711
cg00000721 0.928692447
cg00000734 0.074004333
cg00000769 0.025766347
cg00000807 0.794285897
cg00000884 0.84267388
cg00000905 0.105300919
cg00000924 0.388757435
cg00000948 0.851059386

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606911_9341679075_R02C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606911_9341679075_R02C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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