Guy-Bart V. Stan

Investigating The Potential of Division of Labour in Synthetic Bacterial Communities for the Production of Violacein

This study shows that splitting the violacein production pathway between two E. coli subpopulations increases violacein production by 2.5 times compared to monoculture.

Design of a biomolecular adaptive controller to restore sustained periodic behavior

This paper designs a biomolecular adaptive controller using an IFFL-like topology to restore sustained oscillations in systems that have lost periodicity.

Microfluidic platform for microbial spore germination studies in multiple growth conditions

A microfluidic platform enables single-cell study of spore germination across multiple growth conditions, revealing new insights into germination dynamics in three soil-dwelling species.

A coarse-grained bacterial cell model for resource-aware analysis and design of synthetic gene circuits

The paper presents a coarse-grained E. coli cell model to analyze and design synthetic gene circuits by capturing resource couplings and growth regulation mechanisms.

Modelling genetic stability in engineered cell populations

The paper presents a framework to model genetic stability in engineered cell populations by linking DNA design with mutation spread and phenotype transitions.

Host-aware RNA-based control of synthetic microbial consortia

This paper develops an RNA-based feedback control system to stabilize microbial consortia composition without using toxins or syntrophy.

FPCountR: Absolute protein quantification using fluorescence measurements

FPCountR calibrates fluorescence readings to absolute units using custom calibrants and novel assays, enabling accurate protein quantification in microbial systems.

Building an RNA-based Toggle Switch using Inhibitory RNA Aptamers

This paper demonstrates an RNA-based toggle switch using inhibitory RNA aptamers that can toggle between two states by sequestering RNA aptamers with DNA sequences.

A linear programming-based strategy to save pipette tips in automated DNA assembly

This paper presents a linear programming strategy to reduce pipette tip usage in automated DNA assembly by optimizing liquid-handling robot paths.

A modular RNA interference system for multiplexed gene regulation

This paper introduces mARi, a modular RNA interference system for multiplexed gene regulation in E. coli, demonstrating its robustness and orthogonality across different genetic contexts.

In situ generation of RNA complexes for synthetic molecular strand displacement circuits in autonomous systems

This paper describes a method to generate RNA complexes in situ using self-cleaving ribozymes for synthetic molecular circuits.

Characterization, modelling and mitigation of gene expression burden in mammalian cells

This study identifies gene expression burden in mammalian cells and introduces miRNA-based circuits to mitigate it, improving synthetic circuit performance.

SBOL Visual 2 Ontology

The paper introduces the SBOL Visual 2 Ontology to standardize the mapping of genetic elements to visual glyphs, facilitating tool development and integration with biological standards.

A low-cost biological agglutination assay for medical diagnostic applications

This paper develops a low-cost agglutination assay using E. coli-displayed nanobodies for detecting biomarkers with high selectivity and low detection limits, suitable for point-of-care testing.

Tools for engineering coordinated system behaviour in synthetic microbial consortia

The paper develops a library of AHL-receiver devices and a software tool to identify orthogonal chemical communication channels for synthetic microbial consortia.

Cell-free prediction of protein expression costs for growing cells

The paper predicts the cost of protein expression in E. coli using a cell-free assay and computational model to assess resource consumption and differentiate between gene expression and metabolic pathway burdens.

Computational Re-Design of Synthetic Genetic Oscillators for Independent Amplitude and Frequency Modulation

This work computationally redesigns synthetic genetic oscillators to enable independent amplitude and frequency modulation using tuneable degradation and additional input signals.

Burden-driven feedback control of gene expression

The paper identifies heat-shock promoters that activate rapidly in response to synthetic gene expression in E. coli and uses them to build a CRISPR/dCas9-based feedback system that improves protein yield by adjusting synthetic construct expression based on cellular burden.