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, 23 November 2011
- Responsible department
- Biology Education Centre
Entry requirements
120 credits including (1) 60 credits in biology and 30 credits in chemistry or 30 credits in earth science, or (2) 90 credits in 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.