| Part 1: Fluids (Instructor: Prof. Scott Manalis) |
| 1 |
Introduction to the course
Fluid 1: Introduction to fluid flow (PDF)
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Logistics
Introduction to the course
Importance of being "multilingual"
Complexity of fluid properties
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| 2 |
Fluid 2: Drag forces and viscosity |
Fluid drag
Coefficient of viscosity
Newton's law of viscosity
Molecular basis for viscosity
Fluid rheology
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| 3 |
Fluid 3: Conservation of momentum |
Fluid kinematics
Acceleration of a fluid particle
Constitutive laws (mass and momentum conservation)
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| 4 |
Fluid 4: Conservation of momentum (example) |
Acceleration of a fluid particle
Forces on a fluid particle
Force balances
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| 5 |
Fluid 5: Navier-Stokes equation |
Inertial effects
The Navier-Stokes equation
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| 6 |
Fluid 6: Flows with viscous and inertial effects |
Flow regimes
The Reynolds number, scaling analysis
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| 7 |
Fluid 7: Viscous-dominated flows, internal flows |
Unidirectional flow
Pressure driven flow (Poiseuille)
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| 8 |
Fluid 8: External viscous flows |
Bernoulli's equation
Stream function
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| 9 |
Fluid 9: Porous media, poroelasticity |
Viscous flow
Stoke's equation
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| 10 |
Fluid 10: Cellular fluid mechanics (guest lecture by Prof. Roger Kamm) |
How cells sense fluid flow |
| Part 2: Fields (Instructor: Prof. Jongyoon Han) |
| 11 |
Field 1: Introduction to EM theory (PDF) |
Why is it important?
Electric and magnetic fields for biological systems (examples)
EM field for biomedical systems (examples)
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| 12 |
Field 2: Maxwell's equations (PDF) |
Integral form of Maxwell's equations
Differential form of Maxwell's equations
Lorentz force law
Governing equations
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| 13 |
Quiz 1 |
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| 14 |
Field 3: EM field for biosystems (PDF) |
Quasi-electrostatic approximation
Order of magnitude of B field
Justification of EQS approximation
Quasielectrostatics
Poisson's equation
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| 15 |
Field 4: EM field in aqueous media (PDF) |
Dielectric constant
Magnetic permeability
Ion transport (Nernst-Planck equations)
Charge relaxation in aqueous media
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| 16 |
Field 5: Debye layer (PDF) |
Solving 1D Poisson's equation
Derivation of Debye length
Significance of Debye length
Electroneutrality and charge relaxation
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| 17 |
Field 6: Quasielectrostatics 2 (PDF) |
Poisson's and Laplace's equations
Potential function
Potential field of monopoles and dipoles
Poisson-Boltzmann equation
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| 18 |
Field 7: Laplace's equation 1 (PDF) |
Laplace's equation
Uniqueness of the solution
Laplace's equation in rectangular coordinate (electrophoresis example) will rely on separation of variables
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| 19 |
Field 8: Laplace's equation 2 (PDF) |
Laplace's equation in other coordinates (solving examples using MATLAB®) |
| 20 |
Field 9: Laplace's equation 3 (PDF) |
Laplace's equation in spherical coordinate (example 7.9.3) |
| Part 3: Transport (Instructor: Prof. Scott Manalis) |
| 21 |
Transport 1 |
Diffusion
Stokes-Einstein equation
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| 22 |
Transport 2 |
Diffusion based analysis of DNA binding proteins |
| 23 |
Transport 3 |
Diffusional flux
Fourier, Fick and Newton
Steady-state diffusion
Concentration gradients
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| 24 |
Transport 4 |
Steady-state diffusion (cont.)
Diffusion-limited reactions
Binding assays
Receptor ligand models
Unsteady diffusion equation
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| 25 |
Transport 5 |
Unsteady diffusion in 1D
Equilibration times
Diffusion lengths
Use of similarity variables
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| 26 |
Transport 6 |
Electrical analogy to understanding cell surface binding |
| 27 |
Quiz 2 |
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| 28 |
Transport 7 |
Convection-diffusion equation
Relative importance of convection and diffusion
The Peclet number
Solute/solvent transport
Generalization to 3D
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| 29 |
Transport 8 |
Guest lecture: Prof. Kamm
Transendothelial exchange
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| 30 |
Transport 9 |
Solving the convection-diffusion equation in flow channels
Measuring rate constants
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| Part 4: Electrokinetics (Instructor: Prof. Jongyoon Han) |
| 31 |
EK1: Electrokinetic phenomena |
Debye layer (revisit)
Zeta potential
Electrokinetic phenomena
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| 32 |
EK2: Electroosmosis 1 (PDF) |
Electroosmotic flow
Electroosmotic mobility (derivation)
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| 33 |
EK3: Electroosmosis 2 (PDF) |
Characteristics of electroosmotic flow
Applications of electroosmotic flow
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| 34 |
EK4: Electrophoresis 1 |
Electrophoretic mobility
Theory of electrophoresis
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| 35 |
EK5: Electrophoresis 2 (PDF) |
Electrophoretic mobility of various biomolecules
Molecular sieving
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| 36 |
EK6: Dielectrophoresis (PDF) |
Induced dipole (from part 2)
C-M factor
Dielectrophoretic manipulation of cells
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| 37 |
EK7: DLVO (PDF) |
Problem of colloid stability
Inter-Debye-layer interaction
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| 38 |
EK8: Forces |
Van der Waals forces
Colloid stability theory
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| 39 |
EK9: Forces |
Summary of the course/evaluation |