|
| Status |
Public on Jun 01, 2018 |
| Title |
GBM primary cultures (p<2) NR09 |
| Sample type |
RNA |
| |
|
| Source name |
GBM primary cultures (p<2), MES
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: glioblastoma multiforme (GBM) primary culture
passage: <2
molecular subtype: MES
|
| Treatment protocol |
No treatment.
|
| Growth protocol |
Samples were grown in defined media DMEM/F12 supplemented with penicillin, streptomycin, glutamine, N2, B27, EGF, FGF and heparin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
All samples were stored at -80C. Total RNA extraction using RNeasy mini kit (Qiagen) according to the manufacturer's instructions. The quality of RNA was controlled by an Agilent 2100 Bioanalyser. RNAs were qualified if the 28S/18S ratio was more than 1.5.
|
| Label |
Cy3
|
| Label protocol |
3 ug of total RNA of each sample as starting material. In vitro transcription with Enzo BioArray High Yield RNA Transcript Labeling kit; T7 RNA polymerase; one-cycle target labeling protocol; one-cycle EukGE-WS2v5 target labeling protocol.
|
| |
|
| Hybridization protocol |
20ug cRNA per hybridization; Incubation under rotation (60 rpm); GeneChip Fluidics Station 400; Agilent SurePrintG3 Human GE 8x60.
|
| Scan protocol |
The scanned images (Agilent Technologies Scanner G2505C) were analyzed with Feature Extraction Software (10.7.1.1) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
|
| Description |
NR09_Mesenchymal_964_2_1
|
| Data processing |
The raw signals of each probe for all the arrays were normalized against a virtual median chip (median raw intensity per row) using a local weighted scattered plot smoother analysis.
|
| |
|
| Submission date |
Jun 22, 2016 |
| Last update date |
Jun 01, 2018 |
| Contact name |
Raluca TEUSAN |
| Organization name |
Inserm
|
| Street address |
IRS-UN - 8 quai Moncousu - BP 70721
|
| City |
Nantes |
| ZIP/Postal code |
44007 |
| Country |
France |
| |
|
| Platform ID |
GPL13607 |
| Series (1) |
| GSE83626 |
Molecular classification of primary cultures of glioblastoma multiforme |
|
