Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Subviral Agents01:29

Subviral Agents

540
Subviral agents are infectious entities that resemble viruses but lack one or more viral components, such as a capsid or essential replication machinery. These agents include viroids, prions, and satellites, each possessing distinct structural and functional characteristics that influence their mode of infection and replication.Viroids are the simplest subviral agents, consisting of circular, single-stranded RNA molecules without a protein coat. They exclusively infect plants, relying entirely...
540
Synthetic Biology02:55

Synthetic Biology

5.5K
Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
5.5K
Introduction to Biological Bases of Psychology01:30

Introduction to Biological Bases of Psychology

4.5K
Biopsychology serves as a vital bridge connecting the intricate domains of biology and psychology, shedding light on how biological systems influence psychological phenomena. This field scrutinizes the biological substrates of behavior and mental processes, emphasizing the nervous system along with the roles of neurotransmitters, hormones, and genetics. It also incorporates evolutionary perspectives to explain the adaptive nature of mental functions.
The nervous system, the cornerstone of...
4.5K
Drugs for Treatment of Crohn's Disease in IBD Using Biologic Agents: Anti-TNF01:24

Drugs for Treatment of Crohn's Disease in IBD Using Biologic Agents: Anti-TNF

509
Tumor Necrosis Factor (TNF), a proinflammatory cytokine, contributes significantly to the inflammation seen in Crohn's disease. It exists as soluble TNF and membrane-bound TNF, with actions mediated through TNF receptors (TNFR). TNFR activation leads to the release of proinflammatory cytokines, T-cell activation, collagen production, and leukocyte migration, all contributing to inflammation in Crohn's disease. Anti-TNF monoclonal antibodies, namely infliximab (Remicade), adalimumab...
509
What is Conservation Biology?01:57

What is Conservation Biology?

24.0K
Conservation biology is a scientific field that focuses on the preservation of biodiversity in order to protect ecosystems while meeting the needs of the human population. Humans require properly functioning ecosystems to maintain our supply of natural resources, including food, medicines, and building materials.
24.0K
Biological Effects of Radiation02:59

Biological Effects of Radiation

17.7K
All radioactive nuclides emit high-energy particles or electromagnetic waves. When this radiation encounters living cells, it can cause heating, break chemical bonds, or ionize molecules. The most serious biological damage results when these radioactive emissions fragment or ionize molecules. For example, α and β particles emitted from nuclear decay reactions possess much higher energies than ordinary chemical bond energies. When these particles strike and penetrate matter, they...
17.7K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

A Golden Gate-Compatible CRISPR-Associated Transposon Tool for Multiplexed Bacterial Genome Editing.

Methods in molecular biology (Clifton, N.J.)·2026
Same author

Knowledge preservation in the era of big science and AI: strategies for sustainable scientific research.

Nature communications·2026
Same author

From FAIR to CURE: guidelines for computational models of biological systems.

NPJ systems biology and applications·2026
Same author

Analysis and control of untemplated DNA polymerase activity for guided synthesis of kilobase-scale DNA sequences.

Nature communications·2026
Same author

Data-driven inference of digital twins for high-throughput phenotyping of motile and light-responsive microorganisms.

Journal of the Royal Society, Interface·2026
Same author

SHARK: A Specialized Host for Assembling R6K Plasmids.

ACS synthetic biology·2026

Related Experiment Video

Updated: Jan 21, 2026

A High-Yield Streptomyces Transcription-Translation Toolkit for Synthetic Biology and Natural Product Applications
07:59

A High-Yield Streptomyces Transcription-Translation Toolkit for Synthetic Biology and Natural Product Applications

Published on: September 10, 2021

4.6K

Agent-based modelling in synthetic biology.

Thomas E Gorochowski1

  • 1BrisSynBio, University of Bristol, Life Sciences Building, Tyndall Avenue, Bristol BS8 1TQ, U.K. thomas.gorochowski@bristol.ac.uk.

Essays in Biochemistry
|December 2, 2016
PubMed
Summary
This summary is machine-generated.

Synthetic biology engineers cellular systems, but programming collective behavior is challenging. Agent-based modeling simulates these systems to discover design rules for engineered biological systems.

Keywords:
agent-based modellingcell populationscollective behaviourssynthetic biology

More Related Videos

Preparation and In Vitro Characterization of Dendrimer-based Contrast Agents for Magnetic Resonance Imaging
11:27

Preparation and In Vitro Characterization of Dendrimer-based Contrast Agents for Magnetic Resonance Imaging

Published on: December 4, 2016

10.5K
Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology
16:11

Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology

Published on: September 16, 2013

65.9K

Related Experiment Videos

Last Updated: Jan 21, 2026

A High-Yield Streptomyces Transcription-Translation Toolkit for Synthetic Biology and Natural Product Applications
07:59

A High-Yield Streptomyces Transcription-Translation Toolkit for Synthetic Biology and Natural Product Applications

Published on: September 10, 2021

4.6K
Preparation and In Vitro Characterization of Dendrimer-based Contrast Agents for Magnetic Resonance Imaging
11:27

Preparation and In Vitro Characterization of Dendrimer-based Contrast Agents for Magnetic Resonance Imaging

Published on: December 4, 2016

10.5K
Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology
16:11

Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology

Published on: September 16, 2013

65.9K

Area of Science:

  • Synthetic biology
  • Systems biology
  • Computational biology

Background:

  • Biological systems display complex emergent behaviors across organizational levels.
  • Synthetic biology seeks to engineer biological systems for predictable functions.
  • Programming individual cells for desired collective behavior remains a significant challenge.

Purpose of the Study:

  • To review the application of agent-based modeling in synthetic biology.
  • To explore computational tools and suitable engineered biological systems for agent-based modeling.
  • To identify challenges and future directions for this methodology.

Main Methods:

  • Agent-based modeling (ABM) as a simulation framework.
  • Review of computational tools for ABM in synthetic biology.
  • Analysis of recently engineered biological systems amenable to ABM.

Main Results:

  • ABM provides a framework to simulate and understand emergent behaviors in biological systems.
  • Identified computational tools and engineered systems applicable to ABM.
  • Highlighted current limitations and potential advancements in the field.

Conclusions:

  • Agent-based modeling is a valuable approach for synthetic biology to design and predict collective cellular behaviors.
  • Further development of ABM methodologies and tools is crucial for advancing synthetic biology.
  • This approach offers a pathway to engineer novel synthetic biological systems with prescribed functions.