Source 1primary paper2013Nucleic Acids Research
Toolkit/mathematical model of light-induced expression kinetics
mathematical model of light-induced expression kinetics
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
This tool is a mathematical model used to quantitatively analyze light-induced gene expression kinetics in a red/far-red light-responsive mammalian gene switch. It supports interpretation of how illumination drives expression dynamics in that optogenetic expression system.
Usefulness & Problems
Why this is useful
The model is useful for quantitatively interpreting expression kinetics in a mammalian red/far-red light-triggered gene switch that enables temporal and spatial control of gene expression. It therefore supports analysis of how optical inputs relate to downstream expression behavior in that system.
Source:
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
Source:
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
Problem solved
It addresses the problem of quantitatively analyzing light-induced gene expression kinetics in a red/far-red light-responsive mammalian switch. The available evidence does not specify whether the model was used for prediction, parameter inference, or control optimization beyond kinetic analysis.
Source:
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
Problem links
Need precise spatiotemporal control with light input
DerivedThis tool is a mathematical model used to quantitatively analyze light-induced gene expression kinetics in a red/far-red light-responsive mammalian gene switch. It supports interpretation of how illumination drives expression dynamics in that optogenetic system.
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete computational method used to design, rank, or analyze an engineered system.
Target processes
No target processes tagged yet.
Input: Light
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationimplementation constraint: spectral hardware requirementoperating role: builder
The model was used in the context of a red/far-red light-responsive mammalian gene switch, so its inputs are tied to red/far-red illumination and expression readouts from that system. The supplied evidence does not report software availability, equations, parameterization procedures, or implementation requirements.
The evidence only states that light-induced expression kinetics were quantitatively analyzed by a mathematical model, without describing the model structure, parameters, assumptions, or predictive accuracy. No independent replication, benchmarking against alternative models, or direct validation breadth for the model itself is provided.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The system was applied for spatially controlled engineering of angiogenesis in chicken embryos.
We apply the system for the spatially controlled engineering of angiogenesis in chicken embryos.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The paper describes a red/far-red light-triggered gene switch for mammalian cells that enables control of gene expression in time and space.
Here, we describe the first red/far-red light-triggered gene switch for mammalian cells for achieving gene expression control in time and space.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
The system is compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression was shown to correlate with the applied photon number and was compatible with different mammalian cell lines, including human primary cells.
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Red light-induced gene expression correlates with the applied photon number.
Red light-induced gene expression was shown to correlate with the applied photon number
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
The system can be reversibly toggled between stable on and off states using short light pulses at 660 nm or 740 nm.
We show that the system can reversibly be toggled between stable on- and off-states using short light pulses at 660 or 740 nm.
activation wavelength 660 nmdeactivation wavelength 740 nm
Approval Evidence
1 source1 linked approval claimfirst-pass slug mathematical-model-of-light-induced-expression-kinetics
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Source:
modeling analysissupports
Light-induced expression kinetics were quantitatively analyzed by a mathematical model.
The light-induced expression kinetics were quantitatively analyzed by a mathematical model.
Source:
Comparisons
Source-backed strengths
A reported strength is that the model enabled quantitative analysis of light-induced expression kinetics rather than only qualitative description. It is associated with a gene switch platform reported to function in different mammalian cell lines, including human primary cells, and to support spatiotemporal control of gene expression.
Compared with mathematical model
mathematical model of light-induced expression kinetics and mathematical model address a similar problem space.
Shared frame: same top-level item type; shared mechanisms: kinetic modeling; same primary input modality: light
Compared with model bioinformatics analysis
mathematical model of light-induced expression kinetics and model bioinformatics analysis address a similar problem space.
Shared frame: same top-level item type; same primary input modality: light
Compared with molecular dynamics simulations
mathematical model of light-induced expression kinetics and molecular dynamics simulations address a similar problem space.
Shared frame: same top-level item type; same primary input modality: light
Relative tradeoffs: appears more independently replicated; looks easier to implement in practice.
Ranked Citations
- 1.