|
Status |
Public on May 19, 2015 |
Title |
AOCS_139_ICGC_DBDE_20130729_002 |
Sample type |
genomic |
|
|
Source name |
TumourMetastasisToDistantLocation
|
Organism |
Homo sapiens |
Characteristics |
gender: Female tissue: TumourMetastasisToDistantLocation 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 |
Nov 09, 2022 |
Contact name |
Ann-Marie Patch |
E-mail(s) |
ann-marie.patch@qimrberghofer.edu.au
|
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 |
|
Relations |
Reanalyzed by |
GSE217673 |