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Sample GSM5467019 Query DataSets for GSM5467019
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

Supplementary file Size Download File type/resource
GSM5467019_TKD2_readscount.csv.gz 294.9 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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