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Sample GSM1606884 Query DataSets for GSM1606884
Status Public on May 19, 2015
Title AOCS_088_ICGC_DBPC_20130701_004
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 GSM6483091
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.288006491
cg00000108 0.911808154
cg00000109 0.812797088
cg00000165 0.344281017
cg00000236 0.851837532
cg00000289 0.571471919
cg00000292 0.647544633
cg00000321 0.329880048
cg00000363 0.189601348
cg00000622 0.010158672
cg00000658 0.799889438
cg00000714 0.146768096
cg00000721 0.92608024
cg00000734 0.081989713
cg00000769 0.051544982
cg00000807 0.769055205
cg00000884 0.77021593
cg00000905 0.097808768
cg00000924 0.547567617
cg00000948 0.695008925

Total number of rows: 485005

Table truncated, full table size 10846 Kbytes.

Supplementary file Size Download File type/resource
GSM1606884_9445229078_R02C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606884_9445229078_R02C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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