GSM3712272: PakiT03 - MelV - IRF1 - 0h; Pteropus alecto; RNA-Seq - SRA

SRX5647016: GSM3712272: PakiT03 - MelV - IRF1 - 0h; Pteropus alecto; RNA-Seq
1 ILLUMINA (Illumina HiSeq 3000) run: 16.2M spots, 4.9G bases, 1.8Gb downloads

Submitted by: NCBI (GEO)

Study: Transcriptomic profiling of bat PakiT03 cells with immune stimulation

PRJNA531166 • SRP191091 • All experiments • All runs

show Abstracthide Abstract

To examine innate immune signalling, IFN baseline and IRF-regulation, we profile Pteropus alecto bat kidney epithelial cells (PakiT03) with Deep NGS coverage. Clonal cell lines were also isolated with CrispR KO for IRF1, IRF3, IRF7, IFNAR2 or IFNAR2/IRF7 double KO. Overall design: IFNa Treatment at 0h, 3h, 6h, 9h, polyIC treatment at 0h, 6h, 9h, or infection with Melaka Virus (PRV3M) for 0h, 9h, 24h timepoints. In wildtype or IRF1/3/7 KO cells (for ifna) or IRF1/3/7, IFNAR2 and IFNAR2/IRF7 KO cells for pIC and PRV3M.

Sample: PakiT03 - MelV - IRF1 - 0h

SAMN11350595 • SRS4592595 • All experiments • All runs

Organism: Pteropus alecto

Library:

Instrument: Illumina HiSeq 3000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: PAIRED

Construction protocol: Cells were lysed into TRK lysis buffer supplemented with β-ME, freeze-thawed, homogenised and extracted as per manufacturers protocol (OMEGA EZNA total RNA Kit I). Total RNA was checked using the RNA 6000 LabChip Kit on the Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA). RNAseq libraries were prepared using Illumina Tru-Seq Stranded Total RNA with Ribo-Zero Gold kit following the manufacturer's instructions (Illumina, San Diego, California, USA). Libraries were validated with an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA), diluted and applied to an Illumina flow cell using the Illumina cBOT system. Sequencing was performed on an Illumina HiSeq 3000 sequencer at the Duke-NUS Genome Biology Facility with the paired-end 150-bp read option.

Experiment attributes:

GEO Accession: GSM3712272

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 16.2M spots, 4.9G bases, 1.8Gb

Run	# of Spots	# of Bases	Size	Published
SRR8859515	16,162,858	4.9G	1.8Gb	2020-03-29

ID:: 7608343

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