ArticleMolecular systems biology2016
A population-based temporal logic gate for timing and recording chemical events.
Article in Molecular systems biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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Who cites it
39 citing papers in PubMed.
- Tunable low-rate genomic recombination with Cre-Applied and environmental microbiology · 2026Article
- Diary of a cell in DNA 'chyrons'.Nature chemical biology · 2025Article
- Tuning and functionalization of logic gates for time resolved programming of bacterial populations.Nucleic acids research · 2025Article
- A history-dependent integrase recorder of plant gene expression with single-cell resolution.Nature communications · 2024Article
- An Exo III-powered closed-loop DNA circuit architecture for biosensing/imaging.Mikrochimica acta · 2024Article
- DNA Reaction System That Acquires Classical Conditioning.ACS synthetic biology · 2024Article
- Temporal logic circuits implementation using a dual cross-inhibition mechanism based on DNA strand displacement.RSC advances · 2023Article
- Temporally resolved transcriptional recording in E. coli DNA using a Retro-Cascorder.Nature protocols · 2023Review
- Untethered Soft Microrobots with Adaptive Logic Gates.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Molecular recording: transcriptional data collection into the genome.Current opinion in biotechnology · 2023Review
- Integrase-mediated differentiation circuits improve evolutionary stability of burdensome and toxic functions in E. coli.Nature communications · 2022Article
- DNA Strand-Displacement Temporal Logic Circuits.Journal of the American Chemical Society · 2022Article
- The Use of Bacteriophages in Biotechnology and Recent Insights into Proteomics.Antibiotics (Basel, Switzerland) · 2022Review
- Probabilistic Inference with Polymerizing Biochemical Circuits.Entropy (Basel, Switzerland) · 2022Article
- Ultrasound-controllable engineered bacteria for cancer immunotherapy.Nature communications · 2022Article
- Data-driven network models for genetic circuits from time-series data with incomplete measurements.Journal of the Royal Society, Interface · 2021Article
- Review
- A MATLAB toolbox for modeling genetic circuits in cell-free systems.Synthetic biology (Oxford, England) · 2021Article
- A mechanistic model of the BLADE platform predicts performance characteristics of 256 different synthetic DNA recombination circuits.PLoS computational biology · 2020Article
- Rational programming of history-dependent logic in cellular populations.Nature communications · 2020Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Engineered bacterial sensors have potential applications in human health monitoring, environmental chemical detection, and materials biosynthesis. While such bacterial devices have long been engineered to differentiate between combinations of inputs, their potential to process signal timing and duration has been overlooked. In this work, we present a two-input temporal logic gate that can sense and record the order of the inputs, the timing between inputs, and the duration of input pulses. Our temporal logic gate design relies on unidirectional DNA recombination mediated by bacteriophage integrases to detect and encode sequences of input events. For an E. coli strain engineered to contain our temporal logic gate, we compare predictions of Markov model simulations with laboratory measurements of final population distributions for both step and pulse inputs. Although single cells were engineered to have digital outputs, stochastic noise created heterogeneous single-cell responses that translated into analog population responses. Furthermore, when single-cell genetic states were aggregated into population-level distributions, these distributions contained unique information not encoded in individual cells. Thus, final differentiated sub-populations could be used to deduce order, timing, and duration of transient chemical events.
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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.