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Simple theory:
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From Self-Assembly to Cell Recognition - Lecture 2
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- 1 Eagle's DNA
- 2 Self-Assembly -Benjamin Rogers
- 3 What kind of functions?
- 4 What kind of structures are required?
- 5 Example of structures with addressable complexity
- 6 1. 'Structural' Complexity through packing lecture 1 2. 'Addressable' Complexity through specific interactions
- 7 Specific interactions are needed for particle recognition example DNA-mediated interactions
- 8 Early example: DNA recognition
- 9 Complementary sequence Single-base mismatched sequence
- 10 Oversimplified Explanation of sensitivity: "Cooperativety"
- 11 First consider 1 bond: binding free energy of delta f
- 12 Key point
- 13 Simple theory:
- 14 DNA-Mediated Colloidal Self-Assembly
- 15 Why is it difficult to make DNA-Colloid structures with hundreds of components?
- 16 Addressable Complexity: The Assembly Of Puzzles.
- 17 Many Hours Later...
- 18 Clearly, we need puzzles that can self-assemble Materials with 'addressable complexity'
- 19 Example of Addressably Complex Material
- 20 Building Blocks: 32-nucleotide DNA strands
- 21 How is it possible to assemble thousands ofdifferent DNA strands?
- 22 Simulations: 998 different DNA 'bricks'.
- 23 Not Just Cubes:
- 24 Structure formation proceed via 'nucleation and growth'
- 25 A simple theory Will Jacobs can reproduce the observed structure of the free energy barriers
- 26 When DNA bricks 'nucleate' they cannot yet form the compete target structure
- 27 Can we go beyond "pure' DNA?
- 28 Designing complex, periodic patterns Y. Ke et al., Nature Chemistry 6, 994 2014
- 29 Multivalency and Recognition
- 30 Consider Limiting Case of Very Strong Bonding No Free Bonds
- 31 Multivalent binding in nature:
- 32 Multivalent binding - What are the advantages?
- 33 The key quantity to optimise is the selectivity a:
- 34 Experiments with multivalent polymers:
- 35 In reality, cells have a receptor 'profile'.
- 36 Interestingly, two very simple rules result:
- 37 Comparison theory-simulations
- 38 Question: why do we get a fever when we have an infection?
- 39 Thank You
