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Sample GSM1606856 Query DataSets for GSM1606856
Status Public on May 19, 2015
Title AOCS_004_ICGC_DBPC_20130205_004
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 GSM6483069

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.290950999
cg00000108 0.944513457
cg00000109 0.878026328
cg00000165 0.21290218
cg00000236 0.873788268
cg00000289 0.580350715
cg00000292 0.602830229
cg00000321 0.281571619
cg00000363 0.264179965
cg00000622 0.018700689
cg00000658 0.789755336
cg00000714 0.095832637
cg00000721 0.92454555
cg00000734 0.070429749
cg00000769 0.023309713
cg00000807 0.858053542
cg00000884 0.803237593
cg00000905 0.097181885
cg00000924 0.416787534
cg00000948 0.841993156

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606856_9305216078_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606856_9305216078_R01C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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