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Sample GSM1606957 Query DataSets for GSM1606957
Status Public on May 19, 2015
Title AOCS_164_ICGC_DBDE_20130904_018
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 GSM6483136
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.143831411
cg00000108 0.925690065
cg00000109 0.681385965
cg00000165 0.119140935
cg00000236 0.898741893
cg00000289 0.533686645
cg00000292 0.431202421
cg00000321 0.128526989
cg00000363 0.111906787
cg00000622 0.019535742
cg00000658 0.81933835
cg00000714 0.075310108
cg00000721 0.92716631
cg00000734 0.073239092
cg00000769 0.033754872
cg00000807 0.621646966
cg00000884 0.799510499
cg00000905 0.115197121
cg00000924 0.855942576
cg00000948 0.835574891

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606957_9445229158_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606957_9445229158_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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