Level of Study
Objectives and Content
The course covers the basics of bioinformatics sequence analysis, in particular the analysis of protein sequences. Topics covered are global and local pairwise alignment, multiple alignment, phylogenetic trees, score matrices, protein database search, p- and e-values, measures of classification performance, profiles, hidden Markov models, and sequence patterns. The course also briefly reviews the necessary basics of molecular biology.
On completion of the course the student should have the following learning outcomes defined in terms of knowledge, skills and general competence:
- understand and be able to explain basics of molecular biology and evolution pertaining to sequence alignment and connect them with the various algorithms
- be able to compare technical aspects of pairwise local and global sequence alignment algorithms
- be able to compare pairwise and multiple sequence alignment algorithms and their computational complexity linked to their application
- be able to use and understand different classification performance measures in the fields of biological sequence analysis
- be able to create working implementations of basic bioinformatics algorithms and to use such algorithms for analysis of concrete data
Required Previous Knowledge
Recommended Previous Knowledge
Be able to implement basic algorithms in a programming language of your own choice. A basic understanding of algorithms and efficiency is required
Credit Reduction due to Course Overlap
INF280: 5 ECTS, INF282: 5 ECTS
Access to the Course
Access to the course requires admission to a programme of study at The Faculty of Mathematics and Natural Sciences
Teaching and learning methods
Lectures, 4 hours per week
Exercises, 2 hours per week
Compulsory Assignments and Attendance
Compulsory exercises are valid for one subsequent semester.
Forms of Assessment
Written exam. If less than 20 students take the course, an oral exam might be arranged.
Compulsory exercises count towards the final grade.
Examination Support Material
Non-programmable calculator, according to the faculty regulations.
The grading scale used is A to F. Grade A is the highest passing grade in the grading scale, grade F is a fail.
Examination both spring semester and autumn semester. In semesters without teaching the examination will be arranged at the beginning of the semester.
The reading list will be available within June 1st for the autumn semester and December 1st for the spring semester
The course will be evaluated by the students in accordance with the quality assurance system at UiB and the department
The Programme Committee is responsible for the content, structure and quality of the study programme and courses.
Course coordinator and administrative contact person can be found on Mitt UiB, or contact mailto:firstname.lastname@example.org Student adviser
The Faculty of Mathematics and Natural Sciences represented by the Department of Informatics is the course administrator for the course and study programme.
mailto:email@example.com Student adviser
T: 55 58 42 00
For written exams, please note that the start time may change from 09:00 to 15:00 or vice versa until 14 days prior to the exam. The exam location will be published 14 days prior to the exam.
Type of assessment: Written examination
- 25.05.2018, 15:00
- 3 hours
- Withdrawal deadline
- Solheimsgt. 18 (Administrasjonsbygget), Eksamenslokale 2. etg.