|
| Status |
Public on Aug 31, 2018 |
| Title |
PLS2KO ML-1 with IFN-α4 for 6h, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
PLS2KO ML-1 cells
|
| Organism |
Mus musculus |
| Characteristics |
cell line: ML-1
cell type: Immortalized hepatocyte
genotype: PLSCR2 knockout
agent: IFN-α4
|
| Treatment protocol |
Cells were treated with mouse IFN-α4 (1000U/ml) for 6h
|
| Growth protocol |
Wild-type/ PLS2KO ML-1 cells were cultured in DMEM containing 10% FBS and 50 μg/ml Gentamicin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted by TRIsure reagent according to manufacturer's instructions. Inclusion of 10 mL/L of the RNase inhibitor NucleoGuard (AmpTec) in the lysis buffer improved RNA yield and recoveries of long transcripts. All samples were treated with TURBO DNA-free (Ambion) to remove trace amounts of genomic DNA. A 2-round amplification was performed with the ExpressArt TRinucleotide mRNA Amplification Kit (AmpTec) according to the manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Single-stranded cDNA was generated from the amplified cRNA with the WT Plus cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).
|
| |
|
| Hybridization protocol |
Samples were hybridized with GeneChip Mouse Clariom S Array (Affymetrix) and scanned at the NHRI Microarray Core Facility.
|
| Scan protocol |
Array scanning was performed according to the manufacturer's instruction (Affymetrix)
|
| Description |
Gene expression data from IFN-α4 treated PLSCR2 knockout ML-1 cells
|
| Data processing |
The data were analyzed using Affymetrix Expression Console™ Software (version 1.4) default analysis settings and RMA (Robust Multi-Array) summarization and normalization options.
|
| |
|
| Submission date |
Feb 21, 2018 |
| Last update date |
Aug 31, 2018 |
| Contact name |
Ming-Hsun Tsai |
| E-mail(s) |
d98449001@ntu.edu.tw
|
| Organization name |
National Taiwan University
|
| Department |
Graduate Institute of Immunology
|
| Lab |
Lee lab
|
| Street address |
Rm513, No 1, Sec 1, Jen-Ai Rd
|
| City |
Taipei |
| ZIP/Postal code |
100 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL23038 |
| Series (1) |
| GSE110967 |
PLSCR2 deficiency in the IFN-I-induced antiviral and inflammatory gene signature |
|
