A comprehensive web tool for toehold switch design
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Officially Accepted for Publication


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AbstractMotivation:
Toehold switches are a class of RNAs with a hairpin loop that can be unfolded upon binding a trigger RNA, thereby exposing a ribosome binding site (RBS) and permitting translation of the reporter protein. They have been shown very useful in detecting a variety of targets including RNAs from Zika and Ebola viruses. The base complementation between the toehold switch and the trigger RNA also makes it sensitive to sequence variations. Design of toehold switches involves a series of considerations related to their sequence properties, structures and specificities.
Results:
Here we present the first comprehensive web tool for designing toehold switches. We also propose a score for predicting the efficacy of designed toehold switches based on properties learned from ∼180 experimentally tested switches.
All Author(s) ListAndrew Ching-Yuet To, David Ho-Ting Chu, Angela Ruoning Wang, Frances Cheuk-Yau Li, Alan Wai-On Chiu, Daisy Yuwei Gao, Chung Hang Jonathan Choi, Siu-Kai Kong, Ting-Fung Chan, King-Ming Chan, Kevin Y Yip
Journal nameBioinformatics
Year2018
ISSN1367-4803
LanguagesEnglish-United Kingdom
KeywordsToehold switch, web tool, RNA secondary sturcture

Last updated on 2020-28-03 at 02:32