ArticleCell systems2017
Automated Design of Synthetic Cell Classifier Circuits Using a Two-Step Optimization Strategy.
Article in Cell systems, 2017. 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.
- Review
- Iterative design of a NAND hybrid riboswitch by deep batch Bayesian optimization.Nucleic acids research · 2026Article
- Intelligent molecular logic computing toolkits: nucleic acid-based construction, functionality, and enhanced biosensing applications.Chemical science · 2025Review
- A synthetic protein-level neural network in mammalian cells.Science (New York, N.Y.) · 2024Article
- Quantitative design of cell type-specific mRNA stability from microRNA expression data.bioRxiv : the preprint server for biology · 2024Article
- Synthetic biology approaches for improving the specificity and efficacy of cancer immunotherapy.Cellular & molecular immunology · 2024Review
- Synthetic gene circuits for cell state detection and protein tuning in human pluripotent stem cells.Molecular systems biology · 2022Article
- Engineering living therapeutics with synthetic biology.Nature reviews. Drug discovery · 2021Review
- From Microbial Communities to Distributed Computing Systems.Frontiers in bioengineering and biotechnology · 2020Review
- Review
- Optimal parameter identification of synthetic gene networks using harmony search algorithm.PloS one · 2019Article
- Synthetic switch-based baculovirus for transgene expression control and selective killing of hepatocellular carcinoma cells.Nucleic acids research · 2018Article
- Computing Mathematical Functions using DNA via Fractional Coding.Scientific reports · 2018Article
- Mapping the operational landscape of microRNAs in synthetic gene circuits.NPJ systems biology and applications · 2018Article
- Designing miRNA-Based Synthetic Cell Classifier Circuits Using Answer Set Programming.Frontiers in bioengineering and biotechnology · 2018Article
- Synthetic Gene Circuits Learn to Classify.Cell systems · 2017Article
- Synthetic Gene Expression Circuits for Designing Precision Tools in Oncology.Frontiers in cell and developmental biology · 2017Review
- Model-guided combinatorial optimization of complex synthetic gene networks.Molecular systems biology · 2016Article
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cell classifiers are genetic logic circuits that transduce endogenous molecular inputs into cell-type-specific responses. Designing classifiers that achieve optimal differential response between specific cell types is a hard computational problem because it involves selection of endogenous inputs and optimization of both biochemical parameters and a logic function. To address this problem, we first derive an optimal set of biochemical parameters with the largest expected differential response over a diverse set of logic circuits, and second, we use these parameters in an evolutionary algorithm to select circuit inputs and optimize the logic function. Using this approach, we design experimentally feasible microRNA-based circuits capable of perfect discrimination for several real-world cell-classification tasks. We also find that under realistic cell-to-cell variation, circuit performance is comparable to standard cross-validation performance estimates. Our approach facilitates the generation of candidate circuits for experimental testing in therapeutic settings that require precise cell targeting, such as cancer therapy.
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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.