# Biomod/2012/Titech/Nano-Jugglers/Simulation

(Difference between revisions)
 Revision as of 20:28, 27 October 2012 (view source) (→1. Driving forces from Bubble detachment)← Previous diff Current revision (04:29, 28 October 2012) (view source) (28 intermediate revisions not shown.) Line 1: Line 1: {{Titech/Nano-Jugglers/HEAD}} {{Titech/Nano-Jugglers/HEAD}} =Simulation Models= =Simulation Models= - + ::[[Image:Simulation models.png|800px]] ==Physical principles for simulations== ==Physical principles for simulations== :We confirm the movement of rocket on 2D plots in simulation. :We confirm the movement of rocket on 2D plots in simulation. Line 8: Line 8: ==1. Driving forces from Bubble detachment== ==1. Driving forces from Bubble detachment== - :'''It helps Biomolecular Rocket go straightforward.''' + ===1.1. Calculation for Speed=== - :Biomolecular rocket accelerates by a single bubble detachment every Δtd seconds . + :'''Bubbles detachment helps Biomolecular Rocket go straightforward.''' + :The Biomolecular Rocket is accelerated by a single bubble detachment every Δtd seconds . :Bubbles detachments occur when fixed time Δtd passed. :Bubbles detachments occur when fixed time Δtd passed. - :We defined radius of bubbles changes with time as following formula. + :We defined radius changes of bubbles with time as following formula. ::[[Image:TNJFormula12.png|250px]] ::[[Image:TNJFormula12.png|250px]] :Δtd is defined as the time which is required bubbles to reach its detachment radius Rd. :Δtd is defined as the time which is required bubbles to reach its detachment radius Rd. ::[[Image:TNJFormula13.png|250px]] ::[[Image:TNJFormula13.png|250px]] - :We defined these vi and Δtd as following formula. + :We defined velocity vi produced by single detachment and Δtd as following formula. {| {| | | Line 25: Line 26: ::[[Image:TNJFormula10.png|250px]] ::[[Image:TNJFormula10.png|250px]] | | - ::[[Image:TNJ constant2.png|400px]] + ::[[Image:TNJ constant2.png|275px]] + |} + + ===1.2. Directional Calculation=== + :'''Where bubbles generation occured is determined randomly on the hemisphere surface with catalytic engine.''' + + {| + | + :We defined angle θ as bubbles detachment direction. + :θ is determined by uniformed numbers in the area where catalytic engines are still attacched. + :Bubbles detachment supply the Biomolecular Rocket velocity of opposite direciton. + |width="30px"| +
+ | + [[Image:Directional.jpg|180px]] |} |} ==2. Fluid resistance== ==2. Fluid resistance== - :'''Fluid resistance decreases speed of Biomolecular Rocket.''' + :'''Fluid resistance decreases speed of the Biomolecular Rocket.''' - :Fluid resistance depends on the velocity of Biomolecular Rocket and viscosity of solution. + :Fluid resistance depends on the velocity of the Biomolecular Rocket and viscosity of solution. :Resistance is defined as :Resistance is defined as ::[[Image:TNJFormula9.png|200px]] ::[[Image:TNJFormula9.png|200px]] - :Therefore, acceleration of Biomolecular Rocket is + :Therefore, acceleration of the Biomolecular Rocket is {| {| | | Line 43: Line 58: ==3. Translational Brownian displacement== ==3. Translational Brownian displacement== :'''Translational Brownian movement prevents Biomolecular Rocket from going straight forward.''' :'''Translational Brownian movement prevents Biomolecular Rocket from going straight forward.''' - :This is because body of rocket is so small and smaller particles can't be controlled under Brownian Movement. + :This is because body of the Biomolecular Rocket is so small and smaller particles can't be controlled under Brownian Movement. :Translational displacement by Brownian movement is described as :Translational displacement by Brownian movement is described as {| {| Line 68: Line 83: ::[[Image:TNJconstant4.png|400px]] ::[[Image:TNJconstant4.png|400px]] |} |} + ::::::>back to [[Biomod/2012/Titech/Nano-Jugglers/Results#2.2._Numerical_estimation_of_the_speed_of_the_Biomolecular_Rocket|Results 2.2. Numerical estimation of the speed of the Biomolecular Rocket]] + ::::::>back to [[Biomod/2012/Titech/Nano-Jugglers/Results#3.3._Directional_control_of_the_Biomolecular_Rocket_by_the_photo-switchable_DNA_system|Results 3.3 Directional control of Biomolecular Rocket by the photo-switchable DNA system]] - + =Tools= - + *Scilab - ==Methods== + =References= + *J. G. Gibbs and Y.-P. Zhao (2009) ''Autonomously motile catalytic nanomotors by bubble propulsion.'' University of Georgia, Athens, Georgia 30602, USA, American Institute of Physics. + *V. A. KiriUov and V. P. Patskov (1979) ''SOME REGULARITIES OF BUBBLE GROWTH UNDER CHEMICAL REACTION.'' Institute of Catalysis, Novosibirsk, USSR, React. Kinet. Catal. Lett., Vol. 11, No. 1, 15-19 (1979)

# Simulation Models

## Physical principles for simulations

We confirm the movement of rocket on 2D plots in simulation.
We assumed that movement of biomolecular rocket is affected by following four forces and dynamics in simulation.

## 1. Driving forces from Bubble detachment

### 1.1. Calculation for Speed

Bubbles detachment helps Biomolecular Rocket go straightforward.
The Biomolecular Rocket is accelerated by a single bubble detachment every Δtd seconds .
Bubbles detachments occur when fixed time Δtd passed.
We defined radius changes of bubbles with time as following formula.
Δtd is defined as the time which is required bubbles to reach its detachment radius Rd.
We defined velocity vi produced by single detachment and Δtd as following formula.

### 1.2. Directional Calculation

Where bubbles generation occured is determined randomly on the hemisphere surface with catalytic engine.
 We defined angle θ as bubbles detachment direction. θ is determined by uniformed numbers in the area where catalytic engines are still attacched. Bubbles detachment supply the Biomolecular Rocket velocity of opposite direciton.

## 2. Fluid resistance

Fluid resistance decreases speed of the Biomolecular Rocket.
Fluid resistance depends on the velocity of the Biomolecular Rocket and viscosity of solution.
Resistance is defined as
Therefore, acceleration of the Biomolecular Rocket is

## 3. Translational Brownian displacement

Translational Brownian movement prevents Biomolecular Rocket from going straight forward.
This is because body of the Biomolecular Rocket is so small and smaller particles can't be controlled under Brownian Movement.
Translational displacement by Brownian movement is described as

## 4. Rotatory Brownian changes

Rotatory Brownian movement decreases the directional controllability of Biomolecular Rocket.
Movement of Biomolecular Rocket is also much influenced by Rotatory Brownian Movement
Rotatory changes by Brownian movement is described as
>back to Results 2.2. Numerical estimation of the speed of the Biomolecular Rocket
>back to Results 3.3 Directional control of Biomolecular Rocket by the photo-switchable DNA system

• Scilab

# References

• J. G. Gibbs and Y.-P. Zhao (2009) Autonomously motile catalytic nanomotors by bubble propulsion. University of Georgia, Athens, Georgia 30602, USA, American Institute of Physics.
• V. A. KiriUov and V. P. Patskov (1979) SOME REGULARITIES OF BUBBLE GROWTH UNDER CHEMICAL REACTION. Institute of Catalysis, Novosibirsk, USSR, React. Kinet. Catal. Lett., Vol. 11, No. 1, 15-19 (1979)