ArticleNature communications2021
Rapid prototyping and design of cybergenetic single-cell controllers.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Single-cell analysis and control of microbial systems using optogenetics.Current opinion in microbiology · 2026Review
- Closed-loop optogenetic control of cell biology enables outcome-driven microscopy.Nature communications · 2025Article
- Protein design accelerates the development and application of optogenetic tools.Computational and structural biotechnology journal · 2025Review
- Image-guided optogenetic spatiotemporal tissue patterning using μPatternScope.Nature communications · 2024Article
- Anti-windup strategies for biomolecular control systems facilitated by model reduction theory for sequestration networks.Science advances · 2024Article
- Advanced methods for gene network identification and noise decomposition from single-cell data.Nature communications · 2024Article
- Deep model predictive control of gene expression in thousands of single cells.Nature communications · 2024Article
- High-throughput feedback-enabled optogenetic stimulation and spectroscopy in microwell plates.Communications biology · 2023Article
- Article
- Structural identifiability of biomolecular controller motifs with and without flow measurements as model output.PLoS computational biology · 2023Article
- Regulation strategies for two-output biomolecular networks.Journal of the Royal Society, Interface · 2023Article
- Dynamic cybergenetic control of bacterial co-culture composition via optogenetic feedback.Nature communications · 2022Article
- Frequency spectra and the color of cellular noise.Nature communications · 2022Article
- A hierarchy of biomolecular proportional-integral-derivative feedback controllers for robust perfect adaptation and dynamic performance.Nature communications · 2022Article
- Platforms for Optogenetic Stimulation and Feedback Control.Frontiers in bioengineering and biotechnology · 2022Review
- Cybergenetic control of microbial community composition.Frontiers in bioengineering and biotechnology · 2022Review
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The design and implementation of synthetic circuits that operate robustly in the cellular context is fundamental for the advancement of synthetic biology. However, their practical implementation presents challenges due to low predictability of synthetic circuit design and time-intensive troubleshooting. Here, we present the Cyberloop, a testing framework to accelerate the design process and implementation of biomolecular controllers. Cellular fluorescence measurements are sent in real-time to a computer simulating candidate stochastic controllers, which in turn compute the control inputs and feed them back to the controlled cells via light stimulation. Applying this framework to yeast cells engineered with optogenetic tools, we examine and characterize different biomolecular controllers, test the impact of non-ideal circuit behaviors such as dilution on their operation, and qualitatively demonstrate improvements in controller function with certain network modifications. From this analysis, we derive conditions for desirable biomolecular controller performance, thereby avoiding pitfalls during its biological implementation.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.