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Introduction to Chemical Kinetics and Computational Modeling

Introduction to Chemical Kinetics and Computational Modeling. Hana El- Samad Byers Hall (QB3), Rm 403D. Hana El-Samad UCSB. Why mathematics in biology?. input. output. Given some initial concentrations, what is output give some prescribed input?. Hana El-Samad UCSB. Molecule A.

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Introduction to Chemical Kinetics and Computational Modeling

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  1. Introduction to Chemical Kinetics and Computational Modeling Hana El-Samad Byers Hall (QB3), Rm 403D Hana El-Samad UCSB

  2. Why mathematics in biology? input output Given some initial concentrations, what is output give some prescribed input? Hana El-Samad UCSB

  3. Molecule A Molecule B Chemical reactions are collisions of molecules Hana El-Samad UCSB

  4. Reactant A time Molecule A Hana El-Samad UCSB

  5. t2 Change in Concentration: DA= A2-A1 A1 Reactant A A2 t1 time Change in time: Dt=t2-t1 Average rate of change in concentration during time Dt= Hana El-Samad UCSB

  6. Derivative of A with Respect to time Change in Concentration: DA= A2-A1 A1 A2 Reactant A t1 t2 instantaneous rate of change in concentration during time dt= Hana El-Samad UCSB

  7. Concentration of A Rate of change of A Degradation constant Hana El-Samad UCSB

  8. Concentration of A Rate of change of A Concentration of D Production constant Degradation constant Hana El-Samad UCSB

  9. Hana El-Samad UCSB

  10. Hana El-Samad UCSB

  11. Hana El-Samad UCSB

  12. Production of A balances degradation A is constant Reaching steady-state (equilibrium) Steady-state: No more change in A Hana El-Samad UCSB

  13. Chemical Reactions inside the cellCentral Dogma of Molecular Biology Hana El-Samad UCSB

  14. start end gene promoter terminator Transcription Transcription factor DNA Hana El-Samad UCSB

  15. mRNA Translation Proteins mRNA ribosomes Hana El-Samad UCSB

  16. start end gene promoter terminator Modeling activator binding and production of mRNA Fast slow Hana El-Samad UCSB

  17. Fast but Hana El-Samad UCSB

  18. Dissociation constant Hana El-Samad UCSB

  19. Hill Function Hana El-Samad UCSB

  20. Hana El-Samad UCSB

  21. start end gene promoter terminator Cooperativity Hana El-Samad UCSB

  22. start end gene promoter terminator Cooperativity n molecules Hana El-Samad UCSB

  23. start end gene promoter terminator Repressor Hana El-Samad UCSB

  24. Hana El-Samad UCSB

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