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Sample GSM1606913 Query DataSets for GSM1606913
Status Public on May 19, 2015
Title AOCS_119_ICGC_DBPC_20130205_097
Sample type genomic
Source name Ascites
Organism Homo sapiens
Characteristics gender: Female
tissue: Ascites
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 May 19, 2015
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

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.186125466
cg00000108 0.892706993
cg00000109 0.878188404
cg00000165 0.247521406
cg00000236 0.74424325
cg00000289 0.481120919
cg00000292 0.751142124
cg00000321 0.312936186
cg00000363 0.342343126
cg00000622 0.015948361
cg00000658 0.80944507
cg00000714 0.097817065
cg00000721 0.884300556
cg00000734 0.064474754
cg00000769 0.033082282
cg00000807 0.889810087
cg00000884 0.78392295
cg00000905 0.150213771
cg00000924 0.579611805
cg00000948 0.852482187

Total number of rows: 485005

Table truncated, full table size 10847 Kbytes.

Supplementary file Size Download File type/resource
GSM1606913_9341679075_R04C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606913_9341679075_R04C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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