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Sample GSM1606927 Query DataSets for GSM1606927
Status Public on May 19, 2015
Title AOCS_135_ICGC_DBPC_20130205_137
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 0.188541285
cg00000108 0.877822083
cg00000109 0.750260209
cg00000165 0.47969133
cg00000236 0.707931935
cg00000289 0.362376201
cg00000292 0.540404147
cg00000321 0.191484046
cg00000363 0.112458021
cg00000622 0.015813454
cg00000658 0.81783968
cg00000714 0.080393145
cg00000721 0.865723013
cg00000734 0.074019154
cg00000769 0.031392788
cg00000807 0.877484662
cg00000884 0.740615608
cg00000905 0.211754059
cg00000924 0.511832922
cg00000948 0.875570672

Total number of rows: 485005

Table truncated, full table size 10798 Kbytes.

Supplementary file Size Download File type/resource
GSM1606927_9341679075_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606927_9341679075_R06C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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