Bioinformatic Analyses I
Syllabus, Master's level, 1BG311
- Code
- 1BG311
- Education cycle
- Second cycle
- Main field(s) of study and in-depth level
- Biology A1N, Technology A1N
- Grading system
- Fail (U), Pass (3), Pass with credit (4), Pass with distinction (5)
- Finalised by
- The Faculty Board of Science and Technology, 15 March 2007
- Responsible department
- Biology Education Centre
Entry requirements
Bachelor's degree including alternative 1) 40 credit points/60 credits biology and 20 credit points/30 credits chemistry or 20 credit points/30 credits earth sciences; alternative 2) 60 credit points/90 credits biology.
Learning outcomes
The course focuses on comparative sequence analyses and public databases. After the course, the student shall be able to
- identify and choose appropriate public databases to solve a given biological problem
- explain the principles for cost based sequence alignment
- outline the process from sequence data to an annotated genome and explain the different techniques
- that are used
- choose and apply (for the problem area) existing software on given biological problems
- implement simpler algorithms for data handling in Perl
- critically analyse, evaluate and compile received results
- Contents
Content
The course deals mainly with bioinformatics with focus on sequence data (DNA/RNA and protein) and contains the following parts and aspects:
Public bioinformatic databases, their design and search tools. Contig assembly. Identification of coding sequences. Pair-wise and multiple sequence alignment, heuristic methods for sequence alignment. Annotation of genomes.
Bioinformatic software and Linux environment. Automation of bioinformatic analyses using Perl.
Modules: Theory 2 credits; computer exercises 2 credits; projects 1 credit
Instruction
The teaching is given in the form of computer-based net teaching, lectures, computer exercises and project assignment.
Assessment
To pass the course is required that all computer exercises equivalent to 2 credits and project assignment equivalent to 1 credit has been presented in writing and is passed. The theory part is examined by a written examination equivalent to 2 credits.