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Dynamical Modeling Methods for Systems Biology
  • Level Foundation
  • Duration 19 hours
  • Course by Icahn School of Medicine at Mount Sinai
  • Offered by

About

An introduction to dynamical modeling techniques used in contemporary Systems Biology research. We take a case-based approach to teach contemporary mathematical modeling techniques. The course is appropriate for advanced undergraduates and beginning graduate students. Lectures provide biological background and describe the development of both classical mathematical models and more recent representations of biological processes. The course will be useful for students who plan to use experimental techniques as their approach in the laboratory and employ computational modeling as a tool to draw deeper understanding of experiments. The course should also be valuable as an introductory overview for students planning to conduct original research in modeling biological systems. This course focuses on dynamical modeling techniques used in Systems Biology research. These techniques are based on biological mechanisms, and simulations with these models generate predictions that can subsequently be tested experimentally. These testable predictions frequently provide novel insight into biological processes. The approaches taught here can be grouped into the following categories: 1) ordinary differential equation-based models, 2) partial differential equation-based models, and 3) stochastic models.

Modules

Course Information

    • 2 Readings
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2 Readings

  • Syllabus
  • Supplemental Files

Section 1

    • 2 Videos
    • 2 Readings
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2 Videos

  • Lecture 1 - Introduction
  • Lecture 2 - Computing with MATLAB - Part 1

2 Readings

  • MATLAB Licenses
  • Lecture Slides

Section 2

    • 1 Videos
    • 2 Readings
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1 Videos

  • Lecture 3 - Computing with MATLAB - Part 2

2 Readings

  • Lecture Slides
  • Supplementary Files

Section 3

    • 2 Videos
    • 3 Readings
    • 1 Assignment
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1 Assignment

  • Assignment 1

2 Videos

  • Lecture 4 - Computing with MATLAB - Part 3
  • Lecture 5 - Computing with MATLAB - Part 4

3 Readings

  • Just In Time MATLAB Tutorials
  • Lecture Slides
  • Supplementary Files

Section 1

    • 1 Videos
    • 1 Readings
Show info about module content

1 Videos

  • Lecture 6 - Introduction to Dynamical Systems - Part 1

1 Readings

  • Lecture Slides

Section 2

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 7 - Introduction to Dynamical Systems - Part 2

1 Readings

  • Lecture Slides

Section 3

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 8 - Introduction to Dynamical Systems - Part 3

1 Readings

  • Lecture Slides

Section 4

    • 1 Videos
    • 1 Readings
    • 1 Assignment
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1 Assignment

  • Assignment 2

1 Videos

  • Lecture 9 - Introduction to Dynamical Systems - Part 4

1 Readings

  • Lecture Slides

Section 1

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 10 - Bistability in Biochemical Signaling Models - Part 1
  • Lecture 11 - Bistability in Biochemical Signaling Models - Part 2

1 Readings

  • Lecture Slides

Section 2

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 12 - Bistability in Biochemical Signaling Models - Part 3

1 Readings

  • Lecture Slides

Section 3

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 13 - Bistability in Biochemical Signaling Models - Part 4

1 Readings

  • Lecture Slides

Section 4

    • 2 Videos
    • 1 Readings
    • 1 Assignment
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1 Assignment

  • Assignment 3

2 Videos

  • Lecture 14 - Bistability in Biochemical Signaling Models - Part 5
  • Lecture 15 - Bistability in Biochemical Signaling Models - Part 6

1 Readings

  • Lecture Slides

Section 1

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 16 - Computational Modeling of the Cell Cycle - Part 1

1 Readings

  • Lecture Slides

Section 2

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 17 - Computational Modeling of the Cell Cycle - Part 2

1 Readings

  • Lecture Slides

Section 3

    • 2 Videos
    • 1 Readings
    • 1 Assignment
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1 Assignment

  • Assignment 4

2 Videos

  • Lecture 18 - Computational Modeling of the Cell Cycle - Part 3
  • Lecture 19 - Computational Modeling of the Cell Cycle - Part 4

1 Readings

  • Lecture Slides

Section 1

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 20 - Mathematical Models of Action Potentials - Part 1

1 Readings

  • Lecture Slides

Section 2

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 21 - Mathematical Models of Action Potentials - Part 2

1 Readings

  • Lecture Slides

Section 3

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 22 - Mathematical Models of Action Potentials - Part 3

1 Readings

  • Lecture Slides

Section 4

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 23 - Mathematical Models of Action Potentials - Part 4
  • Lecture 24 - Mathematical Models of Action Potentials - Part 5

1 Readings

  • Lecture Slides

Section 5

    • 1 Videos
    • 1 Readings
    • 1 Assignment
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1 Assignment

  • Assignment 5

1 Videos

  • Lecture 25 - Mathematical Models of Action Potentials - Part 6

1 Readings

  • Lecture Slides

Section 1

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 26 - Modeling with Partial Differential Equations - Part 1

1 Readings

  • Lecture Slides

Section 2

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 27 - Modeling with Partial Differential Equations - Part 2
  • Lecture 28 - Modeling with Partial Differential Equations - Part 3

1 Readings

  • Lecture Slides

Section 1

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 29 - Stochastic Modeling - Part 1
  • Lecture 30 - Stochastic Modeling - Part 2

1 Readings

  • Lecture Slides

Auto Summary

"Dynamical Modeling Methods for Systems Biology" is an engaging course focused on contemporary mathematical modeling techniques in Systems Biology. Ideal for advanced undergraduates and beginning graduate students, it covers ordinary differential equations, partial differential equations, and stochastic models. This foundational course, instructed by Coursera, spans 1140 minutes and offers valuable insights for experimental and computational researchers. Subscription options include Starter and Professional plans. Perfect for those aiming to deepen their understanding of biological processes through modeling.

Eric Sobie, PhD
Instructor

Eric Sobie, PhD