|
| Status |
Public on Apr 22, 2020 |
| Title |
Vehicle_U87 |
| Sample type |
RNA |
| |
|
| Source name |
U87 glioblastoma cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: U87
cell type: glioblastoma
group: 24h vehicle
|
| Treatment protocol |
MS_E2_U87_Crizo2_24h: U87 cells cultured in 10% FBS/DMEM with 2 uM Crizotinib for 24 hours; U87_Ctr4CG_24h: U87 cells cultured in 10% FBS/DMEM without drugs for 24 hours. MS_E4_U87_CrizoR_4CR: U87 cells cultured in 10% FBS/DMEM with 1 uM Crizotinib for 21 days; MS_E4_U87_CrizoR_4CR: same growth condition to MS_E4_U87_CrizoR_4CR, just without Crizotinib.
|
| Growth protocol |
All the U87 cells were cultured in 10%FBS/DMEM medium, in 37 degree 5% CO2 incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAs of the U87 cells in different culture medim were collected and extracted at the same time with RNeasy Mini Kit (Qiagen Cat No./ID: 74104).
|
| Label |
biotin
|
| Label protocol |
Biotin labeling was performed using the WT Plus reagent kit (Affymetrix, Santa Clara, CA) according to the manufacturer's protocol.
|
| |
|
| Hybridization protocol |
The labeled, fragmented DNA was hybridized to the Affymetrix Human Gene 2.0 ST Array for 18 hours in a GeneChip Hybridization oven 640 at 45oC with rotation (60 rpm). The hybridized samples were washed and stained using an Affymetrix fluidics station 450.
|
| Scan protocol |
After staining, microarrays were immediately scanned using an Affymetrix GeneArray Scanner 3000 7G Plus.
|
| Description |
Gene expression data from U87 glioblastoma cells treated with vehicle for 24h.
|
| Data processing |
Raw Affymetrix CEL files were normalized to produce Entrez Gene-identifier-specific expression values using the implementation of the Robust Multiarray Average (RMA) in the affy Bioconductor package (version 1.36.1), using R version 2.15.1 and the Brainarray hugene20sthsentrezgcdf R package (version 17.0.0).
|
| |
|
| Submission date |
May 02, 2018 |
| Last update date |
Apr 22, 2020 |
| Contact name |
Boston University Microarray and Sequencing Resource |
| E-mail(s) |
msrdata@bu.edu
|
| Organization name |
Boston University
|
| Department |
Microarray and Sequencing Resource
|
| Street address |
72 East Concord Street, E631
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02118 |
| Country |
USA |
| |
|
| Platform ID |
GPL17930 |
| Series (1) |
| GSE113961 |
Expression data of glioblastoma cells with Crizotinib acute and chronic treatment vs its own vehicle control |
|
