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Sample GSM1606901 Query DataSets for GSM1606901
Status Public on May 19, 2015
Title AOCS_105_ICGC_DBPC_20130205_078
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 GSM6483100
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.217418809
cg00000108 0.934535385
cg00000109 0.868519441
cg00000165 0.351388608
cg00000236 0.805046028
cg00000289 0.512297586
cg00000292 0.712359032
cg00000321 0.509345599
cg00000363 0.148376591
cg00000622 0.025764307
cg00000658 0.793070605
cg00000714 0.109737364
cg00000721 0.93516077
cg00000734 0.06897494
cg00000769 0.034342196
cg00000807 0.784285934
cg00000884 0.784665951
cg00000905 0.083260907
cg00000924 0.672826233
cg00000948 0.811057186

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606901_9298768178_R03C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606901_9298768178_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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