|
| Status |
Public on Apr 10, 2017 |
| Title |
DPN treatment in spheres, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
DPN treatment in spheres
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF7
phenotype: spheres
cell state: cancer stem cell state
treated with: 10nM DPN for 48hrs
|
| Treatment protocol |
Single cells were dissociated from MCF7 spheres and treated with 10nM phtpp or dpn in triplicates for 48h. Monolayer MCF7 adherent cells were treated with 10nM dpn in triplicates for 48h.
|
| Growth protocol |
MCF7 spheres were cultured in the selective medium for 3 generations. MCF7 adherent cultures were maitained in white DMEM supplied with 5%FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted by using RNeasy mini kit from QIAGEN according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated sense-strend DNA is generated from 100ng of total RNA using Affymetrix standard protcol(WT PLUS reagent user manual)
|
| |
|
| Hybridization protocol |
5ug of target is hybridizedto HTA 2.0 Array in Affymetrix Hybridization Oven 645 for 16 hr at 45C
|
| Scan protocol |
Arrays were scanned using the Affymetrix Gene Chip Scanner 3000 7G
|
| Description |
Gene expression data from MCF7 spheres treated with DPN.
RM01_D1_MCF7_S
|
| Data processing |
Gene level normalization was done using Robust MultiChip Analysis (RMA) algorithm in Affymetrix Expression Console. Differentially expressed genes between treatment groups were identified by one-way Analysis of Variance (ANOVA) of preprocessed data in Affymetrix Trancriptome Analysis Console, including genes with±1.2 fold change, P-value of <0.05 and known gene annotation.
|
| |
|
| Submission date |
Mar 24, 2014 |
| Last update date |
Apr 10, 2017 |
| Contact name |
Johan Hartman |
| E-mail(s) |
johan.hartman@ki.se
|
| Phone |
+46739760242
|
| Organization name |
Karolinska University Hospital
|
| Department |
Department of Clinical Pathology and Cytology
|
| Street address |
Karolinska Vägen
|
| City |
Stockholm |
| State/province |
Sweden |
| ZIP/Postal code |
17176 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL17586 |
| Series (1) |
| GSE56139 |
Gene expression profiling from MCF7 |
|
