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Sample GSM1606946 Query DataSets for GSM1606946
Status Public on May 19, 2015
Title AOCS_150_ICGC_DBPC_20130205_171
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 0.145255246
cg00000108 0.908731752
cg00000109 0.801186151
cg00000165 0.428059559
cg00000236 0.865241907
cg00000289 0.516460511
cg00000292 0.526394173
cg00000321 0.488949629
cg00000363 0.131011362
cg00000622 0.023259982
cg00000658 0.807118553
cg00000714 0.053109714
cg00000721 0.936169972
cg00000734 0.063141362
cg00000769 0.027050461
cg00000807 0.785775968
cg00000884 0.765759745
cg00000905 0.099332964
cg00000924 0.223756481
cg00000948 0.701688181

Total number of rows: 485005

Table truncated, full table size 10851 Kbytes.

Supplementary file Size Download File type/resource
GSM1606946_9341679082_R04C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606946_9341679082_R04C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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