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Sample GSM1606903 Query DataSets for GSM1606903
Status Public on May 19, 2015
Title AOCS_107_ICGC_DBPC_20130607_004
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 GSM6483102
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.142100103
cg00000108 0.939338348
cg00000109 0.858620612
cg00000165 0.2114874
cg00000236 0.835384035
cg00000289 0.630152191
cg00000292 0.764798577
cg00000321 0.611307435
cg00000363 0.161075499
cg00000622 0.019469676
cg00000658 0.816362266
cg00000714 0.068479972
cg00000721 0.908214317
cg00000734 0.07139739
cg00000769 0.03104913
cg00000807 0.876476616
cg00000884 0.849501568
cg00000905 0.140978835
cg00000924 0.639072245
cg00000948 0.877925224

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606903_9341679070_R01C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606903_9341679070_R01C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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