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Sample GSM1606943 Query DataSets for GSM1606943
Status Public on May 19, 2015
Title AOCS_148_ICGC_DBPC_20130205_168
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 GSM6483126

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.079168784
cg00000108 0.911972404
cg00000109 0.801377358
cg00000165 0.265724044
cg00000236 0.741366185
cg00000289 0.341235466
cg00000292 0.700862108
cg00000321 0.408710883
cg00000363 0.089504131
cg00000622 0.023380494
cg00000658 0.768500212
cg00000714 0.054573729
cg00000721 0.858340199
cg00000734 0.063784505
cg00000769 0.034330649
cg00000807 0.852119209
cg00000884 0.736414269
cg00000905 0.165014898
cg00000924 0.357412373
cg00000948 0.617771276

Total number of rows: 485005

Table truncated, full table size 10836 Kbytes.

Supplementary file Size Download File type/resource
GSM1606943_9445229094_R03C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606943_9445229094_R03C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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