8BM050 - Systems Biology Models

Information regarding the postponement of the course

Due to the cyber attack at the Eindhoven University of Technology, the start of the course has been postponed by one week. The course will now start on February 12, 2025. The course schedule has been adjusted accordingly. Additionally, the following changes have been made to the course schedule:

• Lecture 7A - endocrinology, is now in the sixth week of lectures, in place of lecture 6A - immunometabolism
• Lecture 6A - immunometabolism, is now on Friday of the sixth week, in place of lecture 6B - diabetes
• Lecture 6B - diabetes, is now in the seventh week of lectures, in place of lecture 7A - endocrinology
• Lecture 7B - clinical endocrinology is cancelled and will not be rescheduled.

You will find the updated schedule on the website.

Welcome to the 8BM050 course!

Welcome to week 7 of the 8BM050 course!

• Lecture A: Diabetes

• Lecture B: -

There are no upcoming deadlines this week.

Canvas → Lecture Notes → Course Information →

This course will discuss principles of human metabolism and its regulation. Basic principles will be discussed first, such as the central human energy metabolism and regulation of metabolism at a cellular level. Then, the functional anatomy of digestive tract, metabolism and its regulatory organs are discussed, additionally discussing regulatory hormones. Finally, the knowledge will be integrated into the discussion of whole-body metabolism, and its adaptation to factors such as stress, exercise and disease.

The biological theory will be complemented by an engineering perspective on metabolic regulation, by discussion of techniques to statically and dynamically model components of this regulatory system. We will discuss the basics of mathematical graph theory and use these to move from static models to dynamic models of biochemical processes and signalling networks. During the practical part of the course, students will be working with these models and using Python to perform simulations and analyses.

🏁 Learning Outcomes

At the end of this course, the student is able to:

1. Describe the molecular details of the conversion of the body’s main energy sources (carbohydrates, lipids, proteins) into energy.
2. Understand and describe the compartmentalisation and adaptation of metabolic processes at a cellular level.
3. Understand and describe the functional anatomy of the digestive system for carbohydrates, lipids and proteins.
4. Describe the function of the liver, adipose tissue, and other metabolic tissues in retaining homeostasis through hormonal and neural regulation
5. Describe energy homeostasis in daily life and how it changes due to stress, exercise, and disease
6. Apply concepts of graph theory (connectivity, directionality, cycles, and self-loops) to study metabolic processes and regulation
7. Construct a linear dynamic model of biochemical processes using the law of mass action
8. Explain the function of different terms in a simple system of (possibly nonlinear) ordinary differential equations.
9. Calculate the steady-state conditions for a simple system of ordinary differential equations.
10. Use Python to simulate and analyse systems of ordinary differential equations

📅 Lecture Schedule

Below you can find the scheduled lectures. You can also use the navigation bar on the left to navigate to various lecture pages. Please use TimeEdit to find the location of each lecture.

📝 Assessment & Deadlines

✉️ Lecturers & Contact

Lecturers

Teaching Assistants

⚠ This course website is carefully filled with all necessary information. When unexpected differences occur between the website and Osiris, the information provided in Osiris is leading.

⚠ Please note that all educational materials related to this course and uploaded to the course website page, including but not limited to, presentation slides, lecture notes, examination materials, tests, formula sheets, are subject to copyright protection by Eindhoven University of Technology and authors of the course. Additionally, the course materials placed on the website, may contain third parties’ copyright protected material. By copying, distorting, distributing, uploading any of the materials placed on the website to the third party websites, you are responsible and liable for infringing copyright of these resources.