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Sample GSM1606863 Query DataSets for GSM1606863
Status Public on May 19, 2015
Title AOCS_058_ICGC_DBPC_20130205_017
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 GSM6483075
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.140924435
cg00000108 0.92000772
cg00000109 0.834170139
cg00000165 0.238905586
cg00000236 0.79009626
cg00000289 0.554801986
cg00000292 0.59201192
cg00000321 0.585377321
cg00000363 0.097881196
cg00000622 0.017676129
cg00000658 0.797163159
cg00000714 0.09830771
cg00000721 0.91488333
cg00000734 0.078220005
cg00000769 2.49E-07
cg00000807 0.790128096
cg00000884 0.70258879
cg00000905 0.100146553
cg00000924 0.629811893
cg00000948 0.867568422

Total number of rows: 485005

Table truncated, full table size 10809 Kbytes.

Supplementary file Size Download File type/resource
GSM1606863_9445229078_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606863_9445229078_R01C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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