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Sample GSM1606944 Query DataSets for GSM1606944
Status Public on May 19, 2015
Title AOCS_149_ICGC_DBPC_20130205_170
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 GSM6483127
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.139172163
cg00000108 0.937649887
cg00000109 0.734449923
cg00000165 0.4124005
cg00000236 0.671264506
cg00000289 0.393493219
cg00000292 0.675854977
cg00000321 0.182500468
cg00000363 0.103207395
cg00000622 0.020202078
cg00000658 0.794644801
cg00000714 0.071588887
cg00000721 0.927732591
cg00000734 0.076167468
cg00000769 0.03252982
cg00000807 0.855130634
cg00000884 0.810005839
cg00000905 0.122883946
cg00000924 0.3746435
cg00000948 0.88234647

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606944_9341679082_R03C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606944_9341679082_R03C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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