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Sample GSM1606948 Query DataSets for GSM1606948
Status Public on May 19, 2015
Title AOCS_153_ICGC_DBPC_20130205_176
Sample type genomic
Source name PrimaryTumour
Organism Homo sapiens
Characteristics gender: Female
tissue: PrimaryTumour
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 Aug 19, 2022
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
Reanalyzed by GSM6483129

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.191230735
cg00000108 0.94817083
cg00000109 0.872888882
cg00000165 0.410740962
cg00000236 0.843196237
cg00000289 0.499370577
cg00000292 0.755055276
cg00000321 0.38991274
cg00000363 0.157846714
cg00000622 0.017454698
cg00000658 0.818026103
cg00000714 0.098088406
cg00000721 0.848043528
cg00000734 0.079603249
cg00000769 0.027086012
cg00000807 0.796881672
cg00000884 0.85255415
cg00000905 0.104879803
cg00000924 0.409983198
cg00000948 0.741204878

Total number of rows: 485005

Table truncated, full table size 10852 Kbytes.

Supplementary file Size Download File type/resource
GSM1606948_9341679082_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1606948_9341679082_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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