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Introduction to Chemical Kinetics and Computational Modeling

This course provides an overview of chemical kinetics and computational modeling, exploring the role of mathematics in biology and the dynamics of chemical reactions. Topics include the central dogma of molecular biology, transcription, translation, and modeling activator binding and mRNA production.

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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

  2. Why mathematics in biology? input output Given some initial concentrations, what is output give some prescribed input?

  3. Molecule A Molecule B Chemical reactions are collisions of molecules

  4. Reactant A time Molecule A

  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=

  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=

  7. Concentration of A Rate of change of A Degradation constant

  8. Concentration of A Rate of change of A Concentration of D Production constant Degradation constant

  9. Production of A balances degradation A is constant Reaching steady-state (equilibrium) Steady-state: No more change in A

  10. Chemical Reactions inside the cellCentral Dogma of Molecular Biology

  11. start end gene promoter terminator Transcription Transcription factor DNA

  12. mRNA Translation Proteins mRNA ribosomes

  13. start end gene promoter terminator Modeling activator binding and production of mRNA Fast slow

  14. Fast but

  15. Dissociation constant

  16. Hill Function

  17. start end gene promoter terminator Cooperativity

  18. start end gene promoter terminator Cooperativity n molecules

  19. start end gene promoter terminator Repressor

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