|
| Status |
Public on Dec 14, 2018 |
| Title |
TPC-1 cells treated with si-SMAD3, rep3 |
| Sample type |
RNA |
| |
|
| Source name |
TPC-1 cells treated with SMAD3 siRNA for 24h
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: TPC-1
|
| Treatment protocol |
25pmol si-SMAD3 or si-Control were transfected into the cells using 4.5ul RNAiMAX lipofectamine (Thermo Fisher SCIENTIFIC). Cells were harvest after 24h treatment.
|
| Growth protocol |
TPC-1 cells were seeded in 6-well-plate and grown to ~85% confluence at the time of transfection.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted by using Trizol reagent (Thermo Fisher SCIENTIFIC) then treated by DNase-I (Ambion) to eliminate DNA contamination. RNA concentration was determined by using Qubit 2.0 Fluorometer (Agilent Technologies) with an RNA HS Assay Kit. The integrity of the RNA samples was assessed by BioAnalyzer (Agilent). All RNA integrity numbers (RINs) were greater than 9.0.
|
| Label |
Biotin
|
| Label protocol |
5.5 ug of single stranded cDNA were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
|
| |
|
| Hybridization protocol |
Samples were hybridized using Herring sperm DNA, Acetylated BSA (50mg/mL), Eukaryotic Hybridization Controls (Affymetrix) •Heat 65°C for 5 minutes, 99°C for 5 minutes, 45°C for 5 minutes centrifuge top speed for 5 minutes •Hybridize 16 hours at 45°C at 60rpm• Fluidics washing is FS450_0001
|
| Scan protocol |
The arrays were scanned with the Affymetrix Genen Chip Scannner 3000 7G system using Affymetrix GeneChip Command Console (AGCC) software.
|
| Description |
Gene expression data from TPC-1 cells treated with si-SMAD3 for 24h
|
| Data processing |
Signal intensities were processed by RMA method using Affymetrix Expression Console software
|
| |
|
| Submission date |
Aug 03, 2017 |
| Last update date |
Dec 14, 2018 |
| Contact name |
Yanqiang Wang |
| Organization name |
The Ohio State University
|
| Street address |
12th w street
|
| City |
Columbus |
| State/province |
Ohio |
| ZIP/Postal code |
43210 |
| Country |
USA |
| |
|
| Platform ID |
GPL23126 |
| Series (1) |
| GSE102225 |
Expression data of TPC-1 cells with SMAD3 knockdown |
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