|
| Status |
Public on Feb 27, 2019 |
| Title |
RT112 - lipo#1 |
| Sample type |
RNA |
| |
|
| Source name |
human bladder cancer cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: RT112
transfection: control
|
| Treatment protocol |
MGH-U3, RT112 and UM-UC-5 cells were transfected for 40h either with siRNA TYRO3#1 (ThermoFisher Scientific, 51331 ID:802) siRNA TYRO3#2 (ThermoFisher Scientific,51331 ID:800 ) or siRNA TYRO3#3 (Qiagen, SI00087087) using LipofectaminRNAimax (Invitrogen) according to the manufacturer's instructions (reverse protocol)
|
| Growth protocol |
The bladder cancer cells,MGH-U3 and UM-UC-5, have been culture in DMEM 10%fetal bobine serum and RT112 were cultured in RPMI 10%fetal bobine serum
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNAs were extracted and purified using RNeasy Mini kits (Qiagen).
|
| Label |
biotin
|
| Label protocol |
100ng of total RNA were amplified to produced biotinylated complementary RNAs, as recommended by Affymetrix.
|
| |
|
| Hybridization protocol |
Affymetrix microarrays were hybridized with 10µg of biotinylated cRNA according the supplier recommendations. Microarrays were washed and stained using FS450 fluidics upon a protocol provided by Affymetrix, corresponding to the U133plus 2.0 arrays
|
| Scan protocol |
Microarrays were scanned using a 7G, Affymetrix GCS3000 scanner, raw data were acquired with Affymetrix Genechip Command Console.
|
| Data processing |
Signal reconstruction was performed with the RMA algorithm as implemented in Bioconductor affy package on R statistical software using the Dai custom CDF package: HGU133Plus2_Hs_ENTREZG Brainarray Custom CDF EntrezG version 18
|
| |
|
| Submission date |
Jun 14, 2017 |
| Last update date |
Feb 27, 2019 |
| Contact name |
Elodie chapeaublanc |
| E-mail(s) |
elodie.chapeaublanc@pasteur.fr
|
| Organization name |
Institut Curie
|
| Department |
UMR 144
|
| Lab |
Equipe Radvanyi
|
| Street address |
26 rue d'ulm
|
| City |
paris |
| ZIP/Postal code |
75248 |
| Country |
France |
| |
|
| Platform ID |
GPL22945 |
| Series (1) |
| GSE100025 |
Gene expression data from MGH-U3, RT112 and UM-UC-5 following TYRO3 knock-down |
|
