High-throughput design of bacterial anti-sense RNAs using CAREng.
Journal
Bioinformatics advances
ISSN: 2635-0041
Titre abrégé: Bioinform Adv
Pays: England
ID NLM: 9918282081306676
Informations de publication
Date de publication:
2022
2022
Historique:
received:
24
03
2022
revised:
19
08
2022
accepted:
23
09
2022
entrez:
26
1
2023
pubmed:
27
1
2023
medline:
27
1
2023
Statut:
epublish
Résumé
Short RNA (sRNA) modulation of gene expression is an increasingly popular tool for bacterial functional genomics. Antisense pairing between an sRNA and a target messenger RNA results in post-transcriptional down-regulation of a specific gene and can thus be used both for investigating individual gene function and for large-scale genetic screens. sRNAs have several advantages over knockout libraries in studies of gene function, including inducibility, the capacity to interrogate essential genes and easy portability to multiple genetic backgrounds. High-throughput, systematic design of antisense RNAs will increase the efficiency and repeatability of sRNA screens. To this end, we present CAREng, the Computer-Automated sRNA Engineer. CAREng designs antisense RNAs for all coding sequences in a given genome, while checking for potential off-targets. CAREng is available as a Python script and through a web portal (https://caren.carleton.ca). Supplementary data are available at
Identifiants
pubmed: 36699397
doi: 10.1093/bioadv/vbac069
pii: vbac069
pmc: PMC9710602
doi:
Types de publication
Journal Article
Langues
eng
Pagination
vbac069Informations de copyright
© The Author(s) 2022. Published by Oxford University Press.
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