Credits: 5

Schedule: 24.02.2020 - 27.05.2020

Teacher in charge (valid 01.08.2018-31.07.2020): 

Alexander Frey

Contact information for the course (applies in this implementation): 

The responsible course teachers can be reached by email:

Alexander Frey (

Tero Eerikäinen (

Teaching Period (valid 01.08.2018-31.07.2020): 

IV-V, course is offered even years

Learning Outcomes (valid 01.08.2018-31.07.2020): 

After the course the student:

  • understands the concepts of Systems biology and how they can be applied to address various research questions
  • knows how –omics technologies are applied to generate data
  • can apply computational tools to treat high-throughput data
  • can differentiate between a reductionistic and a holistic view of a cell
  • can quantitatively describe biological phenomena
  • analyze the behavior of small biological networks using modeling and simulation
  • can model basic microbial metabolism

Content (valid 01.08.2018-31.07.2020): 

The course aims at the analysis and understanding of biological phenomena using –omics tools, mathematical models and simulations. In the course students learn to view the cell as a complex system of interacting components (DNA-protein, protein-protein or metabolite-enzyme). As the individual components often are involved in many different reactions, complex networks are evolving which govern the cellular activities. These networks can be deduced from a global analysis of cells using –omics tools (transcriptomics, proteomics and metabolomics) and other experimental approaches. Methods and strategies for acquisition and analysis of high throughput data will be discussed. Computer exercises will be used to combine theory with the practice. Modeling of metabolic fluxes, their control and thermodynamic balances are practiced. Programs helping in the interpretation of high throughput data will be used.

Details on the course content (applies in this implementation): 

The course consists of two majors parts "Systems Biology" and "Metabolic modeling". Both parts include lectures and exercises. In addition, assignments will be distributed at the beginning of the course.

During the first two lectures (February 24th and March 2nd) both topics will be introduced and the assignments and reading materials for individual course work will be distributed.

The part "Metabolic modeling" will be completed during weeks (10 to 12-14).

The part "Systems Biology" will be completed during weeks (16-21).

The exact course schedule (lectures and exercises) will be published on my courses including all important deadlines for individual course work.

Assessment Methods and Criteria (valid 01.08.2018-31.07.2020): 

Lectures, computer exercises, assignments and independent studying

Elaboration of the evaluation criteria and methods, and acquainting students with the evaluation (applies in this implementation): 

Grading of course is based on:

  • examination (70%)
  • Assignments (15%)
  • Exercises (15%)

Workload (valid 01.08.2018-31.07.2020): 

Total 135h

Lectures 24 h

Computer exercises 24 h

Assignments 30 h

Independent studying 53 h

Exam 4 h

Study Material (valid 01.08.2018-31.07.2020): 

Material to be announced

Course Homepage (valid 01.08.2018-31.07.2020):

Prerequisites (valid 01.08.2018-31.07.2020): 

CHEM-E8120 Cell biology

Grading Scale (valid 01.08.2018-31.07.2020): 

Fail, 1 – 5 grading is based on exam (70%) and computer exercises and assignments (30%).

Registration for Courses (valid 01.08.2018-31.07.2020): 


Details on the schedule (applies in this implementation): 

The exact course schedule (lectures and exercises) will be published on mycourses including all important deadlines for individual course work.


Registration and further information