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Weizmann Institute of Science Department of Molecular Cell Biology
Uri Alon Lab
Design Principles in Biology
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System Medicine 2022-2023

Lecture Notes and exercises 

Links for interactive python notebook tutorials

Colab notebooks:

  • Tutorial exercise 1 - introduction to sympy

  • Tutorial exercise 2 - expressing the glucose insulin model in python

  • Tutorial exercise 3 - exponential decay

  • Tutorial exercise 4 -  solving the steady state of the system

  • Tutorial exercise 5 - simulating GTT

  • Github repository 

The lecture notes are actually chapters from a new book we are working on. They are presented here in goolge doc format. Please comment if anything is unclear or if there are typos. This will help us make the book better.

  • Chapter 0: Introduction 

  • Chapter 1: The insulin circuit

    • Exercise set 1

  • Chapter 2: Dynamical compensation, mutant resistance, and type-2 diabetes

  • Chapter 2.5: Three laws of physiology

  • Chapter 3: The stress hormone axis as a two-gland oscillator

  • Chapter 3.5: The thyroid and its discontents

  • Chapter 4: Autoimmune diseases as a fragility of mutant surveillance

    • Exercise set 2

  • Chapter 5: Inflammation and fibrosis as a bistable system

  • Chapter 6: Basic facts aging

    • Exercise set 3

  • Chapter 7: Aging and saturated repair

  • Chapter 8: Age-related diseases

  • Chapter 9: Periodic Table of diseases

  • Chapter 10: Epilog - Simplicity in Systems Medicine 

    • Final Exercise

 

 

 

 

 

 

Weizmann Institute of Science Department of Molecular Cell Biology
Uri Alon Lab
Design Principles in Biology