Chueh Loo Poh
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View article: Machine learning-assisted enzyme engineering through ultra-high throughput sorting and large-scale sequence-function data generation
Machine learning-assisted enzyme engineering through ultra-high throughput sorting and large-scale sequence-function data generation Open
Machine learning (ML) shows great promise in protein engineering but has yet to be integrated with ultra-high throughput sorting (ultra-HTS) and NGS for large-scale sequence-function data generation to harness its capability to explore wid…
View article: Identification and monitoring of cell heterogeneity from plasmid recombination during limonene production
Identification and monitoring of cell heterogeneity from plasmid recombination during limonene production Open
Detecting alterations in plasmid structures is often performed using conventional molecular biology. However, these methods are laborious and time-consuming for studying the conditions inducing these mutations, which prevent real-time acce…
View article: D2Sim: A Computational Simulator for Nanopore Sequencing based DNA Data Storage
D2Sim: A Computational Simulator for Nanopore Sequencing based DNA Data Storage Open
DNA data storage has gained significant attention because of its high storage density and durability. However, errors during the storage and reading processes compromise data integrity, prompting research into error correction strategies. …
View article: Automated Microbial Classification System based on Deep Convolutional Neural Networks using Images from Colony Picker
Automated Microbial Classification System based on Deep Convolutional Neural Networks using Images from Colony Picker Open
Colony screening in single and multi-species environments is an essential step for microbiome studies. However, it possesses a high possibility of inaccurately classifying the species of interest and demands a high degree of manpower and t…
View article: Two Cellular Resource Based Models Linking Growth and Parts Characteristics Aids the Study and Optimization of Synthetic Gene Circuits
Two Cellular Resource Based Models Linking Growth and Parts Characteristics Aids the Study and Optimization of Synthetic Gene Circuits Open
A major challenge in synthetic genetic circuit development is the inter-dependency between heterologous gene expressions by circuits and host's growth rate. Increasing heterologous gene expression increases burden to the host, resulting in…
View article: Highly Reversible Tunable Thermal-Repressible Split-T7 RNA Polymerases (Thermal-T7RNAPs) for Dynamic Gene Regulation
Highly Reversible Tunable Thermal-Repressible Split-T7 RNA Polymerases (Thermal-T7RNAPs) for Dynamic Gene Regulation Open
Temperature is a physical cue that is easy to apply, allowing cellular behaviors to be controlled in a contactless and dynamic manner via heat-inducible/repressible systems. However, existing heat-repressible systems are limited in number,…
View article: Thermogenetics: Applications come of age
Thermogenetics: Applications come of age Open
Temperature is a ubiquitous physical cue that is non-invasive, penetrative and easy to apply. In the growing field of thermogenetics, through beneficial repurposing of natural thermosensing mechanisms, synthetic biology is bringing new opp…
View article: Concatenated Code Design for Constrained DNA Data Storage with Asymmetric Errors
Concatenated Code Design for Constrained DNA Data Storage with Asymmetric Errors Open
DNA Data storage has recently attracted much attention due to its durable preservation and extremely high information density (bits per gram) properties. In this work, we propose a hybrid coding strategy comprising of generalized constrain…
View article: Highly Reversible Tunable Thermal-repressible Split-T7 RNA polymerases (Thermal-T7RNAPs) for dynamic gene regulation
Highly Reversible Tunable Thermal-repressible Split-T7 RNA polymerases (Thermal-T7RNAPs) for dynamic gene regulation Open
SUMMARY Temperature is a physical cue that is easy to apply, allowing cellular behaviors to be controlled in a contactless and dynamic manner via heat-inducible/repressible systems. However, existing heat-repressible systems are limited an…
View article: Modelling, characterization of data-dependent and process-dependent errors in DNA data storage
Modelling, characterization of data-dependent and process-dependent errors in DNA data storage Open
Motivation Using DNA as the medium to store information has recently been recognized as a promising solution for long-term data storage. While several system prototypes have been demonstrated, the error characteristics in DNA data storage …
View article: Editorial
Editorial Open
We start the fifth volume of Engineering Biology at a time that it is becoming increasingly clear that the engineering biology field is likely to have a very significant impact on the growth of the international bioeconomy and the drive to…
View article: Future trends in synthetic biology in Asia
Future trends in synthetic biology in Asia Open
Synthetic biology research and technology translation has garnered increasing interest from the governments and private investors in Asia, where the technology has great potential in driving a sustainable bio‐based economy. This Perspectiv…
View article: BMSS2: a unified database-driven modelling tool for systematic model selection and identifiability analysis
BMSS2: a unified database-driven modelling tool for systematic model selection and identifiability analysis Open
Summary Modelling in Synthetic Biology constitutes a powerful tool in our continuous search for improved performance with rational Design-Build-Test-Learn approach. In particular, kinetic models unravel system dynamics, enabling system ana…
View article: SynBiopython: an open-source software library for <i>Synthetic Biology</i>
SynBiopython: an open-source software library for <i>Synthetic Biology</i> Open
Advances in hardware automation in synthetic biology laboratories are not yet fully matched by those of their software counterparts. Such automated laboratories, now commonly called biofoundries, require software solutions that would help …
View article: Future Trends in Synthetic Biology: What to Expect in Asia
Future Trends in Synthetic Biology: What to Expect in Asia Open
Synthetic biology research and technology translation has garnered increasing interest from the governments and private investors in Asia, where the technology has great potential in driving a sustainable bio-based economy. This Perspectiv…
View article: Thermodynamically Stable DNA Code Design using a Similarity Significance Model
Thermodynamically Stable DNA Code Design using a Similarity Significance Model Open
DNA code design aims to generate a set of DNA sequences (codewords) with minimum likelihood of undesired hybridizations among sequences and their reverse-complement (RC) pairs (cross-hybridization). Inspired by the distinct hybridization a…
View article: High capacity DNA data storage with variable-length Oligonucleotides using repeat accumulate code and hybrid mapping
High capacity DNA data storage with variable-length Oligonucleotides using repeat accumulate code and hybrid mapping Open
Background With the inherent high density and durable preservation, DNA has been recently recognized as a distinguished medium to store enormous data over millennia. To overcome the limitations existing in a recently reported high-capacity…
View article: A highly sensitive graphene oxide based label-free capacitive aptasensor for vanillin detection
A highly sensitive graphene oxide based label-free capacitive aptasensor for vanillin detection Open
Biosynthetic production of vanillin via microbial biotransformation offers a low-cost alternative for manufacturers to meet the consumer demands for natural vanillin. However, identifying the high vanillin-producing microbial strains among…
View article: Author Correction: Building a global alliance of biofoundries
Author Correction: Building a global alliance of biofoundries Open
The original version of this Comment contained errors in the legend of Figure 2, in which the locations of the fifteenth and sixteenth GBA members were incorrectly given as ‘(15) Australian Genome Foundry, Macquarie University; (16) Austra…
View article: Construction of Bio-Constrained Code for DNA Data Storage
Construction of Bio-Constrained Code for DNA Data Storage Open
With extremely high density and durable preservation, DNA data storage has become one of the most cutting-edge techniques for long-term data storage. Similar to traditional storage which impose restrictions on the form of encoded data, dat…
View article: Optimized Code Design for Constrained DNA Data Storage With Asymmetric Errors
Optimized Code Design for Constrained DNA Data Storage With Asymmetric Errors Open
With ultra-high density and preservation longevity, deoxyribonucleic acid (DNA)-based data storage is becoming an emerging storage technology. Limited by the current biochemical techniques, data might be corrupted during the processes of D…
View article: Capturing Multicellular System Designs Using the Synthetic Biology Open Language (SBOL)
Capturing Multicellular System Designs Using the Synthetic Biology Open Language (SBOL) Open
Synthetic biology aims to improve the development of biological systems and in-crease their reproducibility through the use of engineering principles, such as stan-dardisation and modularisation. It is important that these systems can be r…
View article: Editorial: BioPart Datasheets
Editorial: BioPart Datasheets Open
Welcome to the first issue of the second volume of Engineering Biology. While we have now published papers from leading researchers in the field, including fascinating opinion pieces concerning the very nature of research in the blossoming…
View article: Editorial
Editorial Open
We are honoured to be writing this Editorial for the first issue of Engineering Biology. This is a new initiative from the Institution of Engineering and Technology (IET) and comes at an exciting time for the field of synthetic biology/eng…