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Sample GSM1606897 Query DataSets for GSM1606897
Status Public on May 19, 2015
Title AOCS_095_ICGC_DBPC_20130607_007
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 GSM6483096
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.118701857
cg00000108 0.91029492
cg00000109 0.908359368
cg00000165 0.31619822
cg00000236 0.727894557
cg00000289 0.474317536
cg00000292 0.845140318
cg00000321 0.273048044
cg00000363 0.126811477
cg00000622 0.015779601
cg00000658 0.790685323
cg00000714 0.095216754
cg00000721 0.929240228
cg00000734 0.060732291
cg00000769 0.018090821
cg00000807 0.813433444
cg00000884 0.808519611
cg00000905 0.077945289
cg00000924 0.368467325
cg00000948 0.872395702

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606897_9341679070_R04C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606897_9341679070_R04C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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