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Sample GSM1606908 Query DataSets for GSM1606908
Status Public on May 19, 2015
Title AOCS_113_ICGC_DBPC_20130205_088
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 GSM6483107

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.137099759
cg00000108 0.946846933
cg00000109 0.869092754
cg00000165 0.389494882
cg00000236 0.821931975
cg00000289 0.452330242
cg00000292 0.789309724
cg00000321 0.448798209
cg00000363 0.085163519
cg00000622 0.024156951
cg00000658 0.787522707
cg00000714 0.055691687
cg00000721 0.944562421
cg00000734 0.075815588
cg00000769 0.026757048
cg00000807 0.873055838
cg00000884 0.80380179
cg00000905 0.148282005
cg00000924 0.200597208
cg00000948 0.882751373

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606908_9341679070_R04C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606908_9341679070_R04C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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