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Sample GSM1606894 Query DataSets for GSM1606894
Status Public on May 19, 2015
Title AOCS_094_ICGC_DBPC_20130205_066
Sample type genomic
Source name TumourLocalRecurrence
Organism Homo sapiens
Characteristics gender: Female
tissue: TumourLocalRecurrence
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 0.398487788
cg00000108 0.90778083
cg00000109 0.867138675
cg00000165 0.610657592
cg00000236 0.832132524
cg00000289 0.573038508
cg00000292 0.770278107
cg00000321 0.576520212
cg00000363 0.143008911
cg00000622 0.021284298
cg00000658 0.810466093
cg00000714 0.121916687
cg00000721 0.881727929
cg00000734 0.077623483
cg00000769 0.041933461
cg00000807 0.846235905
cg00000884 0.851281732
cg00000905 0.106366807
cg00000924 0.575874407
cg00000948 0.84876321

Total number of rows: 485005

Table truncated, full table size 10852 Kbytes.

Supplementary file Size Download File type/resource
GSM1606894_9298768178_R05C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606894_9298768178_R05C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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