Engineering genetic circuits: advancements in genetic design automation tools and standards for synthetic biology

L Buecherl, CJ Myers - Current opinion in microbiology, 2022 - Elsevier
Highlights•Synthetic biology aims to apply engineering principles in biology.•Insufficient part
libraries, standards, and software are challenges to the field.•Working on the challenges will …

Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022

M König, P Gleeson, M Golebiewski… - Journal of Integrative …, 2023 - degruyter.com
This special issue of the Journal of Integrative Bioinformatics contains updated
specifications of COMBINE standards in systems and synthetic biology. The 2022 special …

[HTML][HTML] The GB4. 0 platform, an all-in-one tool for CRISPR/Cas-based multiplex genome engineering in plants

M Vazquez-Vilar, V Garcia-Carpintero… - Frontiers in Plant …, 2021 - frontiersin.org
CRISPR/Cas ability to target several loci simultaneously (multiplexing) is a game-changer in
plant breeding. Multiplexing not only accelerates trait pyramiding but also can unveil traits …

A network approach to genetic circuit designs

M Crowther, A Wipat, Á Goñi-Moreno - ACS synthetic biology, 2022 - ACS Publications
As genetic circuits become more sophisticated, the size and complexity of data about their
designs increase. The data captured goes beyond genetic sequences alone; information …

Synbiosuite: a tool for improving the workflow for genetic design and modeling

Z Sents, TE Stoughton, L Buecherl… - ACS Synthetic …, 2023 - ACS Publications
Synthetic biology research has led to the development of many software tools for designing,
constructing, editing, simulating, and sharing genetic parts and circuits. Among these tools …

Specifications of standards in systems and synthetic biology

F Schreiber, GD Bader, M Golebiewski… - Journal of integrative …, 2015 - degruyter.com
Standards shape our everyday life. From nuts and bolts to electronic devices and
technological processes, standardised products and processes are all around us. Standards …

Stochastic hazard analysis of genetic circuits in iBioSim and STAMINA

L Buecherl, R Roberts, P Fontanarrosa… - ACS synthetic …, 2021 - ACS Publications
In synthetic biology, combinational circuits are used to program cells for various new
applications like biosensors, drug delivery systems, and biofuels. Similar to asynchronous …

Virtual Parts Repository 2: Model-driven design of genetic regulatory circuits

G Mısırlı, B Yang, K James, A Wipat - ACS Synthetic Biology, 2021 - ACS Publications
Engineering genetic regulatory circuits is key to the creation of biological applications that
are responsive to environmental changes. Computational models can assist in …

[HTML][HTML] Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024

M Golebiewski, G Bader, P Gleeson… - Journal of Integrative …, 2024 - degruyter.com
The “COmputational Modeling in BIology NEtwork”(COMBINE) initiative aims to harmonise
the development of diverse community standards for computational models in biology [1, 2] …

[HTML][HTML] Specifications of standards in systems and synthetic biology: status and developments in 2021

F Schreiber, P Gleeson, M Golebiewski… - Journal of Integrative …, 2021 - degruyter.com
This special issue of the Journal of Integrative Bioinformatics contains updated
specifications of COMBINE standards in systems and synthetic biology. The 2021 special …