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Content Example of pathway simulation work and map Pathway simulation model and equations

Lecture 6: Determination of Pathway Parameters Y.Z. Chen Department of Pharmacy National University of Singapore Tel: 65-6616-6877; Email: phacyz@nus.edu.sg ; Web: http://bidd.nus.edu.sg. Content Example of pathway simulation work and map Pathway simulation model and equations

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Content Example of pathway simulation work and map Pathway simulation model and equations

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  1. Lecture 6: Determination of Pathway ParametersY.Z. ChenDepartment of PharmacyNational University of SingaporeTel: 65-6616-6877; Email: phacyz@nus.edu.sg ; Web: http://bidd.nus.edu.sg • Content • Example of pathway simulation work and map • Pathway simulation model and equations • Pathway simulation parameters • Pathway simulation parameter estimation methods • Sequence similarity, Global optimization (against protein concentrations), QKIR • Parameter sensitivity analysis

  2. Pathway Simulation Work

  3. Pathway Simulation Work Hatakeyama Biochem J 373, 451 (2003)

  4. Pathway Map Hatakeyama Biochem J 373, 451 (2003)

  5. Pathway Mathematical Model Materi & Wishart Drug Discov Today 12, 295 (2007)

  6. Pathway Mathematical Model Hatakeyama Biochem J 373, 451 (2003)

  7. Pathway Simulation Equations Hatakeyama Biochem J 373, 451 (2003)

  8. Pathway Simulation Equations Hatakeyama Biochem J 373, 451 (2003)

  9. Pathway Simulation Equations Hatakeyama Biochem J 373, 451 (2003)

  10. Pathway Simulation Parameters Hatakeyama Biochem J 373, 451 (2003)

  11. Pathway Simulation Parameters Hatakeyama Biochem J 373, 451 (2003)

  12. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs

  13. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs

  14. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs

  15. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs Shimada, Arch Biochem Biophys 435, 207 (2005)

  16. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs Shimada, Arch Biochem Biophys 435, 207 (2005)

  17. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs

  18. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs Li, J Biol Chem 337, 743 (2004)

  19. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs Li, J Biol Chem 337, 743 (2004)

  20. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs

  21. Pathway Simulation Parameter Estimation I: Exploration of Similarity Protein Pairs Keeble, Biochemistry 45, 3243 (2006)

  22. Pathway Simulation Parameter Estimation I: Exploration of Similarity Proteins (Different Substrates)

  23. Pathway Simulation Parameter Estimation I: Exploration of Similarity Proteins (Different Substrates) Ober, J Biol Chem 278, 12805 (2003)

  24. Pathway Simulation Parameter Estimation I: Exploration of Similarity Proteins (Same Substrate)

  25. Pathway Simulation Parameter Estimation I: Exploration of Similarity Proteins (Same Substrate)

  26. Pathway Simulation Parameter Estimation I: Exploration of Similarity Proteins (Different Substrates)

  27. Pathway Simulation Parameter Estimation I: Exploration of Similarity Proteins (Different Substrates) Khan, J Biol Chem 281, 11702 (2006)

  28. Pathway Simulation Parameter Estimation I: Exceptions: Similarity Proteins Not always Work

  29. Pathway Simulation Parameter Estimation II:Global Optimization Method (GOM) Moles, Genome Research 13, 2467 (2003)

  30. Pathway Simulation Parameter Estimation II:Global Optimization Method (GOM) Moles, Genome Research 13, 2467 (2003) Example of decision variables: protein concentrations

  31. Pathway Simulation Parameter Estimation II:Application of GOM to a Model Pathway Moles, Genome Research 13, 2467 (2003)

  32. Pathway Simulation Parameter Estimation II:Parameters and Decision Variable Values Moles, Genome Research 13, 2467 (2003)

  33. Pathway Simulation Parameter Estimation II:Pathway Simulation Equations Moles, Genome Research 13, 2467 (2003)

  34. Pathway Simulation Parameter Estimation II:Pathway Simulation Parameter Fitting Curves Moles, Genome Research 13, 2467 (2003)

  35. Pathway Simulation Parameter Estimation II:Pathway Simulation Parameter Fitting Curves Moles, Genome Research 13, 2467 (2003)

  36. Pathway Simulation Parameter Estimation II:Other Studies Using GOM Strategy

  37. Pathway Simulation Parameter Estimation III: Quantitative kinetics-Interaction Fields Relationship (QKIR)

  38. Pathway Simulation Parameter Estimation III: Quantitative kinetics-Interaction Fields Relationship (QKIR) BMC Bioinformatics 8, 373 (2007)

  39. Pathway Simulation Parameter Estimation III: Quantitative kinetics-Interaction Fields Relationship (QKIR) BMC Bioinformatics 8, 373 (2007)

  40. Pathway Simulation Parameter Estimation III: Quantitative kinetics-Interaction Fields Relationship (QKIR) BMC Bioinformatics 8, 373 (2007)

  41. Pathway Simulation Parameter Sensitivity Analysis

  42. Pathway Simulation Parameter Sensitivity Analysis

  43. Pathway Simulation Parameter Sensitivity Analysis

  44. Pathway Simulation Parameter Sensitivity Analysis

  45. Pathway Simulation Parameter Sensitivity Analysis

  46. Pathway Simulation Parameter Sensitivity Analysis C A B

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