Methods in Bioinformatics
Syllabus, Bachelor's level, 1MB331
- Code
- 1MB331
- Education cycle
- First cycle
- Main field(s) of study and in-depth level
- Biology G2F, Chemistry G2F, Technology G2F
- Grading system
- Fail (U), Pass (3), Pass with credit (4), Pass with distinction (5)
- Finalised by
- The Faculty Board of Science and Technology, 18 April 2013
- Responsible department
- Biology Education Centre
Entry requirements
60 credits within the programme including the courses Cell Biology, Structural Bioinformatics, Programming Techniques II, Probability and Statistics and Database Design I.
Learning outcomes
The course provides knowledge about and skills within the application of bioinformatic tools on typical biological issues.
After completing the course, the student should be able to
- identify and choose appropriate public databases to solve a given biological problem
- explain the principles of various types of sequence alignments
- use Perl for data management
- explain different models for pattern recognition
- outline and apply the process of making and evaluating a phylogenetic analysis based on different methods and explain the different phases
- choose and apply (for the bioinformatic problem area) existing software to given biological problems
- analyse, evaluate and compile results of bioinformatic analyses critically
Content
The course mainly deals with bioinformatics with focus on sequence data and contains the following parts and aspects:
Public bioinformatic databases, their design and search tools. Identification of coding sequences. Pair-wise and multiple sequence alignment, heuristic methods for sequence alignment Automation of bioinformatic analyses by means of Perl. Models for sequence evolution and statistical sequence comparisons. Phylogenetics; parsimony, distance methods, probability-based methods (maximum likelihood and Bayesian analyses).
Instruction
The course consists of lectures and computer exercises.
Assessment
Parts of the course: Theory 2 credits; computer exercises 3 credits.
For the overall grade Pass, it is required that the computer exercises have been presented in writing and orally and are passed. The theory part is examined in a written examination.