course-details-portlet

TKP4195 - Bio-Systems Engineering

About

Examination arrangement

Examination arrangement: Aggregate score
Grade: Letter grades

Evaluation Weighting Duration Grade deviation Examination aids
Laboratory Assignment 30/100
School exam 70/100 4 hours E

Course content

The course consists of theory in lectures, assignments and computer laboratory work to practice and simulate bio-systems. Introduction to modeling and dynamical systems. Modeling Michaelis-Menten kinetics, Phosphorylation processes, Hill dynamic, gene regulatory networks (GRN), mass action low, Quasi steady-state, modeling of cellular signal transduction, Introduction to Synthetic biology, modelling gene expression, genetic circuits, motifs such as toggle switch and oscillations in bacteria, feedback and feed-forward motifs, Modeling with Matlab programming, parameter estimation and curve-fitting. Big data analysis: network analysis, simulation of networks, Principle component analysis. We will also learn about bio-systems and dynamics: Stability, Bi-stability, limit cycles and oscillations in cellular biology.

Learning outcome

At the end of the course the student will be able to develop models of bio-systems, both in molecular (genetic) level and organism level. The students will understand the effect genetic circuits, and design their own regulating gene circuits. They will also understand and will be able to describe dynamical properties such as genetic switches and oscillations. They will learn to use models to develop and control cellular and genetic processes.

Learning methods and activities

Lectures, assignments and laboratory work. The assignments will be both in the computer and theoretical. The course can be taught in English if needed (for international students).

Further on evaluation

The written exam counts 70% of the total grade.

The Laboratory assignment is 30%, evaluated by the report submitted (by deadline) by the groups of students (2-5 students in a group).

If there is a re-sit examination, the examination form may change from written to oral.

Required previous knowledge

The candidate is expected to have basic university mathematics knowledge of Calculus and Linear Algebra.

Knowledge in Microbiology / general biology is advantegous but not compulsory.

Course materials

1. Lecture notes.

2. Introduction to Systems biology (Uri Alon).

3. System Modeling in Cellular Biology- FROM CONCEPTS TO NUTS AND BOLTS

More on the course
Facts

Version: 1
Credits:  7.5 SP
Study level: Second degree level

Coursework

Term no.: 1
Teaching semester:  SPRING 2023

Language of instruction: English, Norwegian

Location: Trondheim

Subject area(s)
  • Systems Biology
  • Technological subjects
Contact information
Course coordinator:

Department with academic responsibility
Department of Chemical Engineering

Examination

Examination arrangement: Aggregate score

Term Status code Evaluation Weighting Examination aids Date Time Examination system Room *
Spring ORD School exam 70/100 E INSPERA
Room Building Number of candidates
Spring ORD Laboratory Assignment 30/100 INSPERA
Room Building Number of candidates
Summer UTS School exam 70/100 E INSPERA
Room Building Number of candidates
  • * The location (room) for a written examination is published 3 days before examination date. If more than one room is listed, you will find your room at Studentweb.
Examination

For more information regarding registration for examination and examination procedures, see "Innsida - Exams"

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