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Sample GSM1606921 Query DataSets for GSM1606921
Status Public on May 19, 2015
Title AOCS_130_ICGC_DBPC_20130205_116
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 GSM6483117
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.209303901
cg00000108 0.942994133
cg00000109 0.841820719
cg00000165 0.680644196
cg00000236 0.82513319
cg00000289 0.353912087
cg00000292 0.824388072
cg00000321 0.564752186
cg00000363 0.118300871
cg00000622 0.016184117
cg00000658 0.787433371
cg00000714 0.07087881
cg00000721 0.874561486
cg00000734 0.07255865
cg00000769 0.017335446
cg00000807 0.80385279
cg00000884 0.748135774
cg00000905 0.124011458
cg00000924 0.354516012
cg00000948 0.812031468

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606921_9341679080_R01C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606921_9341679080_R01C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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