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Sample GSM1606929 Query DataSets for GSM1606929
Status Public on May 19, 2015
Title AOCS_137_ICGC_DBPC_20130205_145
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 0.199203833
cg00000108 0.926699617
cg00000109 0.90210672
cg00000165 0.734997261
cg00000236 0.84104956
cg00000289 0.550587691
cg00000292 0.789341847
cg00000321 0.524808664
cg00000363 0.146682005
cg00000622 0.026361194
cg00000658 0.838090719
cg00000714 0.1310729
cg00000721 0.918058041
cg00000734 0.066457649
cg00000769 0.038302946
cg00000807 0.827901321
cg00000884 0.68522712
cg00000905 0.174942604
cg00000924 0.112432198
cg00000948 0.644766724

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606929_9341679082_R01C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606929_9341679082_R01C01_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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