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Literature DB >> 27840651

Mathematical modeling and synthetic biology.

D Chandran¹, W B Copeland¹, S C Sleight¹, H M Sauro¹.

Abstract

Synthetic biology is an engineering discipline that builds on our mechanistic understanding of molecular biology to program microbes to carry out new functions. Such predictable manipulation of a cell requires modeling and experimental techniques to work together. The modeling component of synthetic biology allows one to design biological circuits and analyze its expected behavior. The experimental component merges models with real systems by providing quantitative data and sets of available biological 'parts' that can be used to construct circuits. Sufficient progress has been made in the combined use of modeling and experimental methods, which reinforces the idea of being able to use engineered microbes as a technological platform.

Year: 2008 PMID： 27840651 PMCID： PMC5102263 DOI： 10.1016/j.ddmod.2009.07.002

Source DB: PubMed Journal: Drug Discov Today Dis Models ISSN： 1740-6757

46 in total

1. Monitoring protein conformations and interactions by fluorescence resonance energy transfer between mutants of green fluorescent protein.

Authors: A Miyawaki; R Y Tsien
Journal: Methods Enzymol Date: 2000 Impact factor: 1.600

Mathematical modeling and synthetic biology.

1. Monitoring protein conformations and interactions by fluorescence resonance energy transfer between mutants of green fluorescent protein.

2. Directed evolution of a genetic circuit.

3. Rewiring MAP kinase pathways using alternative scaffold assembly mechanisms.

4. The OR control system of bacteriophage lambda. A physical-chemical model for gene regulation.

5. Boolean formalization of genetic control circuits.

Review 6. Synthetic gene circuits: design with directed evolution.

7. In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data.

Review 8. Visualization, documentation, analysis, and communication of large-scale gene regulatory networks.

9. Circuit simulation of genetic networks.

10. A fast, robust and tunable synthetic gene oscillator.

1. Modelling co-translational dimerization for programmable nonlinearity in synthetic biology.

2. GAMES: A Dynamic Model Development Workflow for Rigorous Characterization of Synthetic Genetic Systems.

3. Artificially constructed quorum-sensing circuits are used for subtle control of bacterial population density.

Review 4. Artificial cell mimics as simplified models for the study of cell biology.

5. Scaling up genetic circuit design for cellular computing: advances and prospects.

6. Synthetic approaches to study transcriptional networks and noise in mammalian systems.