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Sample GSM1606915 Query DataSets for GSM1606915
Status Public on May 19, 2015
Title AOCS_122_ICGC_DBPC_20130205_102
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 GSM6483111
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.436805891
cg00000108 0.9214501
cg00000109 0.847365334
cg00000165 0.562862426
cg00000236 0.865504835
cg00000289 0.623111195
cg00000292 0.831530914
cg00000321 0.446684166
cg00000363 0.163015984
cg00000622 0.017099918
cg00000658 0.797822461
cg00000714 0.10377305
cg00000721 0.957487915
cg00000734 0.089570024
cg00000769 0.045824433
cg00000807 0.801451561
cg00000884 0.817513174
cg00000905 0.109769363
cg00000924 0.233626125
cg00000948 0.855928551

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606915_9341679075_R06C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606915_9341679075_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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