ArticleProceedings of the National Academy of Sciences of the United States of America2016
Molecular circuits for dynamic noise filtering.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- GenAI-Net: A generative AI framework for automated biomolecular network design.Science advances · 2026Article
- Advanced methods for gene network identification and noise decomposition from single-cell data.Nature communications · 2024Article
- Bioenergetic costs and the evolution of noise regulation by microRNAs.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- The constrained-disorder principle defines the functions of systems in nature.Frontiers in network physiology · 2024Review
- A reaction network scheme for hidden Markov model parameter learning.Journal of the Royal Society, Interface · 2023Article
- Systematic analysis of noise reduction properties of coupled and isolated feed-forward loops.PLoS computational biology · 2021Article
- Characterization and mitigation of gene expression burden in mammalian cells.Nature communications · 2020Article
- Kalman-like Self-Tuned Sensitivity in Biophysical Sensing.Cell systems · 2019Article
- Multiscale effects of heating and cooling on genes and gene networks.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Sources, propagation and consequences of stochasticity in cellular growth.Nature communications · 2018Article
- Molecular Filters for Noise Reduction.Biophysical journal · 2018Article
- Heritable stress response dynamics revealed by single-cell genealogy.Science advances · 2018Article
- The importance of thermodynamics for molecular systems, and the importance of molecular systems for thermodynamics.Natural computing · 2018Article
- System identification of signaling dependent gene expression with different time-scale data.PLoS computational biology · 2017Article
- Making sense of snapshot data: ergodic principle for clonal cell populations.Journal of the Royal Society, Interface · 2017Article
- Universal signal generator for dynamic cell stimulation.Lab on a chip · 2017Article
- Chemical reaction networks for computing logarithm.Synthetic biology (Oxford, England) · 2017Article
- Ultrasensitivity in signaling cascades revisited: Linking local and global ultrasensitivity estimations.PloS one · 2017Article
Corrections and comments
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4 authors.
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Abstract
The invention of the Kalman filter is a crowning achievement of filtering theory-one that has revolutionized technology in countless ways. By dealing effectively with noise, the Kalman filter has enabled various applications in positioning, navigation, control, and telecommunications. In the emerging field of synthetic biology, noise and context dependency are among the key challenges facing the successful implementation of reliable, complex, and scalable synthetic circuits. Although substantial further advancement in the field may very well rely on effectively addressing these issues, a principled protocol to deal with noise-as provided by the Kalman filter-remains completely missing. Here we develop an optimal filtering theory that is suitable for noisy biochemical networks. We show how the resulting filters can be implemented at the molecular level and provide various simulations related to estimation, system identification, and noise cancellation problems. We demonstrate our approach in vitro using DNA strand displacement cascades as well as in vivo using flow cytometry measurements of a light-inducible circuit in Escherichia coli.
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