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Syllabus for

Academic year
MVE360 - Bioinformatics
 
Syllabus adopted 2014-02-24 by Head of Programme (or corresponding)
Owner: MPBIO
7,5 Credits
Grading: TH - Five, Four, Three, Not passed
Education cycle: Second-cycle
Major subject: Bioengineering, Information Technology, Mathematics
Department: 11 - MATHEMATICAL SCIENCES


Teaching language: English
Open for exchange students
Block schedule: C

Course module   Credit distribution   Examination dates
Sp1 Sp2 Sp3 Sp4 Summer course No Sp
0111 Examination 7,5 c Grading: TH   7,5 c   14 Mar 2016 am EKL,  04 Apr 2016 am EKL,  26 Aug 2016 am SB

In programs

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

Examiner:

Bitr professor  Graham Kemp



  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

Basic courses in molecular biology and statistics.

Aim

Genetic information is stored in the DNA molecule as a linear sequence of bases. In the course of gene expression this sequence is translated into a sequence of amino acids in a protein. The sequence of amino acids in turn determines the three-dimensional shape and biological function of the protein. As DNA sequencing technology has been dramatically improved recently we are facing a vast amount of data in basic science as well as in areas such as clinical medicine.

Analysis of DNA, RNA and protein sequences will therefore play an essential role in coming years. The aims for such analysis include genome analysis, structural and functional prediction, elucidation of the molecular basis for human disease, understanding fundamental biological systems and reconstruction of evolutionary history.

The course illustrates how bioinformatics solutions are applied in addressing biological problems, and the theoretical principles behind these solutions are discussed.

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

  • implement solutions to basic bioinformatics problems
  • discuss the use of bioinformatics in addressing a range of biological questions
  • describe how bioinformatics methods can be used to relate sequence, structure and function
  • discuss the technologies for modern high-throughput DNA sequencing and their applications
  • use and describe some central bioinformatics data and information resources
  • describe principles and algorithms of pairwise and multiple alignments, and sequence database searching
  • perform pattern matching in biomolecular sequences
  • describe how evolutionary relationships can be inferred from sequences (phylogenetics)
  • describe the most important principles in gene prediction methods
  • describe basic principles of hidden Markov models and their application in sequence analysis

Content

The course covers basic methods used in sequence analysis such as pairwise and multiple alignment, searching databases for sequence similarity, profiles, pattern matching, hidden Markov models, RNA bioinformatics, gene prediction methods and principles for molecular phylogeny. The course includes modern high-throughput sequencing techniques and their applications, as well as molecular biology databases and different systems to query such databases. The course considers theoretical principles as well as how existing programs are being used by bioinformaticians.

Organisation

Lectures and computer exercises.

Literature

See separate list.

Examination

There will be 5-8 obligatory computer practicals. The student is examined by these computer exercises and a written exam.


Page manager Published: Mon 28 Nov 2016.