Source 1primary paper2018Scholarly Commons (University of Pennsylvania)
Toolkit/mathematical model for calcium oscillation waveform variation
mathematical model for calcium oscillation waveform variation
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
This tool is a mathematical modeling method used together with an optogenetically engineered cell line and custom hardware to optically re-create calcium oscillation patterns. It enables independent variation of a single calcium waveform component within reconstructed oscillatory inputs.
Usefulness & Problems
Why this is useful
The method is useful for experimentally probing how specific features of calcium oscillation waveforms contribute to signaling encoding. By supporting independent control of one waveform component at a time, it provides a way to dissect calcium dynamics in the context of optogenetic control over Gq-protein signaling.
Source:
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Source:
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
Problem solved
It addresses the problem of generating calcium oscillation patterns in which individual waveform components can be varied independently rather than co-varying in native signaling. The cited work places this capability in the study of calcium encoding through bi-directional optogenetic control of Gq-protein signaling.
Source:
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
Problem links
Need conditional recombination or state switching
DerivedThis computation method is a mathematical model used with an optogenetically engineered cell line and custom hardware to optically re-create calcium oscillation patterns in which a single waveform component is varied independently. It was developed in the context of studying calcium encoding through bi-directional optogenetic control over Gq-protein signaling.
Need precise spatiotemporal control with light input
DerivedThis computation method is a mathematical model used with an optogenetically engineered cell line and custom hardware to optically re-create calcium oscillation patterns in which a single waveform component is varied independently. It was developed in the context of studying calcium encoding through bi-directional optogenetic control over Gq-protein signaling.
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete computational method used to design, rank, or analyze an engineered system.
Mechanisms
feedback regulation of g-protein-coupled calcium oscillationsfeedback regulation of g-protein-coupled calcium oscillationslight-induced heterodimerizationlight-induced heterodimerizationmembrane recruitment of the rgs2 domainmembrane recruitment of the rgs2 domainTechniques
Computational DesignTarget processes
recombinationInput: Light
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationimplementation constraint: multi component delivery burdenimplementation constraint: spectral hardware requirementoperating role: builderswitch architecture: multi componentswitch architecture: recruitment
Implementation required a mathematical model, an optogenetically engineered cell line, and custom hardware for optical recreation of calcium oscillation patterns. The associated biological system used light-induced heterodimerization to recruit the RGS2 domain to the membrane, where it interacted with its cognate G protein and functioned as a feedback regulator of G-protein-coupled calcium oscillations.
The supplied evidence does not describe the model structure, parameters, predictive accuracy, or generalizability beyond the reported experimental system. Validation is only described in the context of one study using a specific optogenetic Gq-signaling platform.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using the engineered opto-RGS2 cell line, RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
Using our engineered opto-RGS2 cell line, we revealed that RGS2 reduced periodicity and stochasticity of G-protein coupled calcium oscillations and acted as a feedback regulator in this signaling circuit.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
A light-induced hetero-dimerization system was engineered to recruit the RGS2 domain to the membrane where it interacted with its cognate G protein.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
The authors developed optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
First, we created optogenetic RGS2 (opto-RGS2) for studying calcium encoding.
Approval Evidence
1 source1 linked approval claimfirst-pass slug mathematical-model-for-calcium-oscillation-waveform-variation
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Source:
experimental capabilitysupports
Using a mathematical model, an optogenetically engineered cell line, and custom hardware, the authors optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Using a mathematical model, an optogenetically-engineered cell line, and custom hardware, we optically re-created patterns of calcium oscillations that independently varied a single waveform component.
Source:
Comparisons
Source-backed strengths
The reported strength is the ability to optically re-create calcium oscillation patterns with independent variation of a single waveform component. The method was demonstrated in an integrated system combining mathematical modeling, an optogenetically engineered cell line, and custom hardware.
mathematical model for calcium oscillation waveform variation and CRY2-talin/CIBN-CAAX optogenetic plasma membrane recruitment system address a similar problem space because they share recombination.
Shared frame: shared target processes: recombination; shared mechanisms: light-induced heterodimerization; same primary input modality: light
Strengths here: looks easier to implement in practice.
Compared with iLID-antiGFP-nanobody
mathematical model for calcium oscillation waveform variation and iLID-antiGFP-nanobody address a similar problem space because they share recombination.
Shared frame: shared target processes: recombination; shared mechanisms: light-induced heterodimerization; same primary input modality: light
Strengths here: looks easier to implement in practice.
Compared with mOptoT7
mathematical model for calcium oscillation waveform variation and mOptoT7 address a similar problem space because they share recombination.
Shared frame: shared target processes: recombination; shared mechanisms: light-induced heterodimerization; same primary input modality: light
Relative tradeoffs: appears more independently replicated.
Ranked Citations
- 1.