A new era of synthetic biology—microbial community design

A Matuszyńska, O Ebenhöh, MD Zurbriggen… - Synthetic …, 2024 - academic.oup.com
Synthetic biology conceptualizes biological complexity as a network of biological parts,
devices, and systems with predetermined functionalities and has had a revolutionary impact …

Evolution of evolvability in gene regulatory networks

A Crombach, P Hogeweg - PLoS computational biology, 2008 - journals.plos.org
Gene regulatory networks are perhaps the most important organizational level in the cell
where signals from the cell state and the outside environment are integrated in terms of …

Using evolutionary computations to understand the design and evolution of gene and cell regulatory networks

A Spirov, D Holloway - Methods, 2013 - Elsevier
This paper surveys modeling approaches for studying the evolution of gene regulatory
networks (GRNs). Modeling of the design or 'wiring'of GRNs has become increasingly …

Evolution of complex modular biological networks

A Hintze, C Adami - PLoS computational biology, 2008 - journals.plos.org
Biological networks have evolved to be highly functional within uncertain environments
while remaining extremely adaptable. One of the main contributors to the robustness and …

Ai-driven automated discovery tools reveal diverse behavioral competencies of biological networks

M Etcheverry, C Moulin-Frier, PY Oudeyer, M Levin - Elife, 2025 - elifesciences.org
Many applications in biomedicine and synthetic bioengineering rely on understanding,
mapping, predicting, and controlling the complex behavior of chemical and genetic …

[图书][B] Modeling biomolecular networks in cells: structures and dynamics

L Chen, R Wang, C Li, K Aihara - 2010 - books.google.com
Taking ideas from nature has been a theme of humanity's technological progress but it is
only our newfound expertise in molecular manipulation and complex nonlinear dynamics …

Morphogenetic robotics: An emerging new field in developmental robotics

Y Jin, Y Meng - IEEE Transactions on Systems, Man, and …, 2010 - ieeexplore.ieee.org
Developmental robotics is also known as epigenetic robotics. We propose in this paper that
there is one substantial difference between developmental robotics and epigenetic robotics …

Evolution of associative learning in chemical networks

S McGregor, V Vasas, P Husbands… - PLoS computational …, 2012 - journals.plos.org
Organisms that can learn about their environment and modify their behaviour appropriately
during their lifetime are more likely to survive and reproduce than organisms that do not …

AutoBioCAD: full biodesign automation of genetic circuits

G Rodrigo, A Jaramillo - ACS synthetic biology, 2013 - ACS Publications
Synthetic regulatory networks with prescribed functions are engineered by assembling a
reduced set of functional elements. We could also assemble them computationally if the …

Computing algebraic functions with biochemical reaction networks

HJ Buisman, HMM ten Eikelder, PAJ Hilbers… - Artificial life, 2009 - direct.mit.edu
In biological organisms, networks of chemical reactions control the processing of information
in a cell. A general approach to study the behavior of these networks is to analyze common …