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Sample GSM1606936 Query DataSets for GSM1606936
Status Public on May 19, 2015
Title AOCS_141_ICGC_DBPC_20130205_153
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 0.095629958
cg00000108 0.908683723
cg00000109 0.882426153
cg00000165 0.751756691
cg00000236 0.867563684
cg00000289 0.595645896
cg00000292 0.497643036
cg00000321 0.641790997
cg00000363 0.082040419
cg00000622 0.028433443
cg00000658 0.813218305
cg00000714 0.060406757
cg00000721 0.904872702
cg00000734 0.078544668
cg00000769 0.030589366
cg00000807 0.849703826
cg00000884 0.802919889
cg00000905 0.109123801
cg00000924 0.147637845
cg00000948 0.879362407

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606936_9341679082_R04C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606936_9341679082_R04C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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