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Sample GSM1606855 Query DataSets for GSM1606855
Status Public on May 19, 2015
Title AOCS_001_ICGC_DBPC_20130205_002
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 GSM6483068
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.256424118
cg00000108 0.90712495
cg00000109 0.834602112
cg00000165 0.395714043
cg00000236 0.853166348
cg00000289 0.435328997
cg00000292 0.788365912
cg00000321 0.299468295
cg00000363 0.215278864
cg00000622 0.02458129
cg00000658 0.805780869
cg00000714 0.102607926
cg00000721 0.923598159
cg00000734 0.081851438
cg00000769 0.016260391
cg00000807 0.823648427
cg00000884 0.755592027
cg00000905 0.11321764
cg00000924 0.225434197
cg00000948 0.862023653

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606855_9341679080_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606855_9341679080_R01C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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