Search course

Use the search function to find more information about the study programmes and courses available at Chalmers. When there is a course homepage, a house symbol is shown that leads to this page.

Graduate courses

Departments' graduate courses for PhD-students.

​​​​
​​

Syllabus for

Academic year
KMG060 - Systems biology  
Systembiologi
 
Syllabus adopted 2019-02-12 by Head of Programme (or corresponding)
Owner: MPBIO
7,5 Credits
Grading: TH - Five, Four, Three, Fail
Education cycle: Second-cycle
Major subject: Bioengineering
Department: 28 - BIOLOGY AND BIOLOGICAL ENGINEERING


Teaching language: English
Application code: 08130
Open for exchange students: Yes
Maximum participants: 60

Module   Credit distribution   Examination dates
Sp1 Sp2 Sp3 Sp4 Summer course No Sp
0107 Examination 7,5 c Grading: TH   7,5 c   26 Oct 2019 pm M   09 Jan 2020 am M   25 Aug 2020 pm J

In programs

MPBIO BIOTECHNOLOGY, MSC PROGR, Year 1 (compulsory)
MPCAS COMPLEX ADAPTIVE SYSTEMS, MSC PROGR, Year 2 (elective)
MPCAS COMPLEX ADAPTIVE SYSTEMS, MSC PROGR, Year 1 (compulsory elective)
MPENM ENGINEERING MATHEMATICS AND COMPUTATIONAL SCIENCE, MSC PROGR, Year 1 (compulsory elective)
MPENM ENGINEERING MATHEMATICS AND COMPUTATIONAL SCIENCE, MSC PROGR, Year 2 (elective)

Examiner:

Martin Engqvist

  Go to Course Homepage


Eligibility:


In order to be eligible for a second cycle course the applicant needs to fulfil the general and specific entry requirements of the programme that owns the course. (If the second cycle course is owned by a first cycle programme, second cycle entry requirements apply.)
Exemption from the eligibility requirement: Applicants enrolled in a programme at Chalmers where the course is included in the study programme are exempted from fulfilling these requirements.

Course specific prerequisites

Chemistry, biochemistry, mathematics (linear algebra, multivariable analysis, differential equations), cell and molecular biology.

Aim

The aim of the course is to give the students a fundamental understanding of: 1) how mathematical modeling of biological systems can be used to gain novel biological insight and 2) how high-throughput biological data can be analyzed. The overall objective is that by passing this course the students should have a solid overview of how systems biology impacts modern medical, biotechnological and nutritional research.

Learning outcomes (after completion of the course the student should be able to)











A student that has passed the course is expected
to be able to:




  • Describe the principles of systems biology



  • Describe
    key cellular processes like transcription, translation, signaling
    and protein secretion in a quantitative fashion



  • Use matrix
    notation to describe the stoichiometry of metabolic networks



  • Describe
    metabolic network reconstruction based on biochemical and genomic
    information




  • Describe how genome-scale metabolic models (GEMs)
    can be used for analysis of cellular physiology




  • Describe how constraints and objective functions
    are underlying principles of flux balance analysis




  • Describe the use of genome-scale metabolic models
    in research on human disease




  • Describe how meta-omics data can be analyzed




  • Describe the principles of RNAseq




  • Describe the principles of proteomics




  • Describe the principles of metabolomics




  • Give 5 examples of how GEMs can be used in modern
    biology




Content










The course gives a description of how systems
biology is impacting medicine, biotechnology and nutrition. The core
of systems biology is quantitative analysis of cellular functions and
in the course all key cellular processes will be discussed in a
quantitative fashion. The course will give insight into how metabolic
networks can be reconstructed from biochemical and genomic
information. Topological analysis of large genome-scale metabolic
models (GEM) will be performed and the basic principles for operation
of large metabolic networks will be discussed and analyzed. The
course will also give a brief introduction to different methods for
generating so-called omics data, e.g. transcriptome, proteome and
metabolome data, and how these can be analyzed. Finally, the course
will present, using quantitative data, what are key drivers for
cellular growth and what are constraining cellular growth. Throughout
the course there will be given examples from studies of yeast,
nutritional studies, and from analysis of clinical data.



Organisation

The course involves lectures and computer exercises.

Literature










Research papers and other relevant material will
be provided to the students in digital form, together with slides and
exercises. This material will be made available in the student portal
ping pong http://pingpong.chalmers.se.



Examination including compulsory elements









Examination
in this course will be in the form of a four hour written exam.
Reports from all exercises have to be approved for passing the
course.




Page manager Published: Thu 04 Feb 2021.