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Sample GSM1606960 Query DataSets for GSM1606960
Status Public on May 19, 2015
Title AOCS_167_ICGC_DBDE_20130904_024
Sample type genomic
Source name Tumourmetastasistodistantlocation
Organism Homo sapiens
Characteristics gender: Female
tissue: Tumourmetastasistodistantlocation
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 GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.091139464
cg00000108 0.950784439
cg00000109 0.873352351
cg00000165 0.589570032
cg00000236 0.826377944
cg00000289 0.568018877
cg00000292 0.816723736
cg00000321 0.215212972
cg00000363 0.139952114
cg00000622 0.018381681
cg00000658 0.786337827
cg00000714 0.122586877
cg00000721 0.937160323
cg00000734 0.076163145
cg00000769 0.027321518
cg00000807 0.848711285
cg00000884 0.760619782
cg00000905 0.101585654
cg00000924 0.25681366
cg00000948 0.839961893

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606960_9445229158_R04C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606960_9445229158_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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