|
| Status |
Public on Jan 06, 2015 |
| Title |
genomic DNA from Surgical resection GBM-1308 |
| Sample type |
genomic |
| |
|
| Source name |
Surgical resection GBM-1308
|
| Organism |
Homo sapiens |
| Characteristics |
gender: F
disease state: GBM
geo expression data: GSM187161
age: 45
os: 17
survival_status: 1
mgmt_status: M
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated using Qiagen AllPrep DNA/RNA Kit (Qiagen, 80204).
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| Data processing |
BeadStudio software v3.2 was used for primary data acqusition. Raw data was imported into R and further processed using R/Bioconductor package “methylumi”. The raw pre-processing (Illumina method) was used for data normalization.
|
| |
|
| Submission date |
Aug 08, 2014 |
| Last update date |
Jan 06, 2015 |
| Contact name |
Sebastian Kurscheid |
| E-mail(s) |
sebastian.kurscheid@anu.edu.au
|
| Organization name |
Australian National University
|
| Department |
JCSMR
|
| Lab |
Prof David Tremethick
|
| Street address |
57 Garran Road
|
| City |
Acton |
| State/province |
ACT |
| ZIP/Postal code |
2601 |
| Country |
Australia |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE60274 |
Genome-wide DNA methylation profiling of 68 GBM (primary & recurrent), 4 glioma spheres and 5 non-tumor brain samples |
|
