[PDF][PDF] Using evolutionary algorithms and machine learning to explore sequence space for the discovery of antimicrobial peptides

…, RT McBurney, V Kulikov, JS Mathieson, SG Reyes… - Chem, 2018 - cell.com
We present a proof-of-concept methodology for efficiently optimizing a chemical trait by
using an artificial evolutionary workflow. We demonstrate this by optimizing the efficacy of …

[HTML][HTML] Time-programmable drug dosing allows the manipulation, suppression and reversal of antibiotic drug resistance in vitro

M Yoshida, SG Reyes, S Tsuda, T Horinouchi… - Nature …, 2017 - nature.com
Multi-drug strategies have been attempted to prolong the efficacy of existing antibiotics, but
with limited success. Here we show that the evolution of multi-drug-resistant Escherichia coli …

PURE mRNA display and cDNA display provide rapid detection of core epitope motif via high‐throughput sequencing

SG Reyes, Y Kuruma, M Fujimi… - Biotechnology and …, 2021 - Wiley Online Library
The reconstructed in vitro translation system known as the PURE system has been used in
a variety of cell‐free experiments such as the expression of native and de novo proteins as …

Identification of conditions for efficient cell-sized liposome preparation using commercially available reconstituted in vitro transcription-translation system

A Uyeda, SG Reyes, T Kanamori, T Matsuura - Journal of bioscience and …, 2022 - Elsevier
Attempts to create complex molecular systems that mimic parts of cellular systems using a
bottom-up approach have become important in the field of biology. Among various molecular …

Uncovering cell-free protein expression dynamics by a promoter library with diverse strengths

S Galiñanes Reyes, Y Kuruma, S Tsuda - bioRxiv, 2017 - biorxiv.org
Cell-free protein expression systems have been widely used for synthetic biology and metabolic
engineering applications in recent years. Yet little is known about protein expression in …

Cell-free protein systems and in vitro display methods as compelling tools for high-throughput screening

SL Galiñanes Reyes - 2021 - theses.gla.ac.uk
Synthetic biology has become a promising field that aims at developing and using tools to
work with recombinant DNA. In this field, cell-free protein expression systems have become a …

Exploring Peptide Sequence Space Using Artificial Intelligence for Antimicrobial Peptides

…, V Kulikov, JS Mathieson, SG Reyes… - Available at SSRN …, 2018 - papers.ssrn.com
The number of effective antibiotics is rapidly decreasing due to the emergence of resistant
bacteria, which necessitates the development of not only new, but novel strategies for …

PURE mRNA display and cDNA display provide rapid detection of consensus binding motif via high-throughput sequencing

SG Reyes, Y Kuruma, M Fujimi, M Yamazaki… - Authorea …, 2020 - essopenarchive.org
The recombinant in vitro translation system known as the PURE system has been used in a
variety of cell-free experiments such as expression of native and de novo proteins as well as …

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…, RT McBurney, V Kulikov, JS Mathieson, SG Reyes… - core.ac.uk
We present a proof of concept methodology to efficiently optimize a chemical trait using an
artificial evolutionary workflow. We demonstrate this by optimizing the efficacy of antimicrobial …

Invariant sets for switched systems to tackle bacterial resistance

A Anderson, MW Kinahan, AH Gonzalez, K Udekwu… - bioRxiv, 2024 - biorxiv.org
The use of chemotherapeutics agents in the treatment of bacterial infections have resulted
in the emergence of multidrug resistant pathogens. Clinically, with single and even multiple …