|
Status |
Public on Jul 18, 2022 |
Title |
siTollip rep2 |
Sample type |
SRA |
|
|
Source name |
Calu-3
|
Organism |
Homo sapiens |
Characteristics |
cell line: Calu-3 sirna: siTollip infection: Mock
|
Treatment protocol |
Calu-3 cells transfected with siNC or siTollip were infected with SARS-CoV-2 (MOI = 0.5) for 24 h.
|
Growth protocol |
Calu-3 cells were cultured in MEM (Gibco) with 1% NEAA (Gibco), 1% sodium pyruvate (Gibco) and 10% (vol/vol) fetal bovine serum (Gibco). Cells were either mock-infected or infected with SARS-CoV-2 (Accession number: MT123290), virus was allowed to adsorb at 37 °C for 1 hr with gentle rocking every 15 min before incubation at 37 °C for indicated time points. Cells were infected at different MOI and time points as indicated.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was harvested using Trizol reagent. Total RNA was isolated from cells using TRIzol reagent (Invitrogen), and sequencing was performed by Sangon Biotech. Sample quality was assessed using a Bioanalyzer (Agilent 2100 Bioanalyzer). RNA-seq libraries of polyadenylated RNA were prepared using mRNA-seq V2 Library Prep Kit and sequenced on MGISEQ-2000 platform.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
MGISEQ-2000RS |
|
|
Description |
TKD2 reads count
|
Data processing |
bcl2fastq conversion software v2.17 used for basecalling. Reads were aligned to the human genome (hg38) using Hisat2. The gene expression level was calculated by using featureCounts. Fold-change (FC) and p-values were calculated with DEseq2. Genome_build: hg38 (GRCh38) Supplementary_files_format_and_content: *csv: Comma-separated text files containing read counts.
|
|
|
Submission date |
Jul 22, 2021 |
Last update date |
Jul 18, 2022 |
Contact name |
shi jun jie |
Organization name |
sysu
|
Street address |
zhongshanerlu74hao
|
City |
guangzhou |
ZIP/Postal code |
471000 |
Country |
China |
|
|
Platform ID |
GPL30209 |
Series (1) |
GSE171130 |
SUMOylation restrains the degradation of ACE2 through TOLLIP-mediated selective autophagy to facilitate the host susceptibility to SARS-CoV-2 infection |
|
Relations |
BioSample |
SAMN20350386 |
SRA |
SRX11523383 |