|
| Status |
Public on Sep 30, 2020 |
| Title |
Control_48h_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
U87_control
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: U87
cell type: Glioblastoma cells
treatment: none (control)
|
| Treatment protocol |
U87 cells were treated with EMEM media containing 1 mM carborane bearing compound and incubated in a dish for 48 h before extraction.
|
| Growth protocol |
U87 celles were grown in EMEM containing 10% FBS and 1 mM sodium pyruvate for 48 h before treatment
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extrcated using trizol followed by an RNeasy column cleanup that included a Dnase step. The quality and the concentrations of total RNA were assessed using the Agilent Bioanalyzer (Agilent Technologies, Santa Clara, CA). Total RNA (100 ng) deemed to be of good quality (RNA integrity number (RIN) greater than 8) was processed according to the standard Affymetrix Whole Transcript Sense Target labeling protocol (Affymetrix, Santa Clara, CA).
|
| Label |
biotin
|
| Label protocol |
Affymetrix Whole Transcript Sense Target labeling protocol
|
| |
|
| Hybridization protocol |
16 h to Affymetrix Human Transcriptome 2.0 ST arrays
|
| Scan protocol |
Affymetrix Scanner 3000 7G using AGCC software.
|
| Description |
SAMPLE 6
|
| Data processing |
CEL files were summarized using the SST RMA algorithm in Transcriptome Analysis Console v4.0.1.36 (Affymetrix) and the normalized data were subjected to one-way ANOVA with a Benjamin Hochberg False Discovery Rate correction included (p<0.05). A 2-fold change was used to select entities that were statistically and differentially expressed between the two conditions.
|
| |
|
| Submission date |
Sep 17, 2018 |
| Last update date |
Oct 01, 2020 |
| Contact name |
Sridar V Chittur |
| E-mail(s) |
[email protected]
|
| Phone |
518-591-7215
|
| Organization name |
SUNY-University at Albany
|
| Department |
Center for Functional Genomics
|
| Lab |
Microarray Core
|
| Street address |
One Discovery Drive, CRC 342G
|
| City |
Rensselaer |
| State/province |
NY |
| ZIP/Postal code |
12144 |
| Country |
USA |
| |
|
| Platform ID |
GPL17586 |
| Series (1) |
| GSE120066 |
Impact on Glioblastoma U87 Cell Gene Expression of a Carborane Cluster-bearing Amino Acid |
|
