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Sample GSM1606886 Query DataSets for GSM1606886
Status Public on May 19, 2015
Title AOCS_090_ICGC_DBPC_20130205_055
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 Aug 19, 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 GSM6483092

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.161038952
cg00000108 0.885686297
cg00000109 0.685204935
cg00000165 0.654875944
cg00000236 0.825957082
cg00000289 0.470761344
cg00000292 0.656228854
cg00000321 0.377037844
cg00000363 0.111949605
cg00000622 0.030686452
cg00000658 0.811696817
cg00000714 0.070497452
cg00000721 0.94200411
cg00000734 0.074464376
cg00000769 0.047267764
cg00000807 0.804361097
cg00000884 0.703580651
cg00000905 0.167275206
cg00000924 0.363200508
cg00000948 0.833012315

Total number of rows: 485005

Table truncated, full table size 10797 Kbytes.

Supplementary file Size Download File type/resource
GSM1606886_9445229078_R04C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606886_9445229078_R04C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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