Autumn. This course has a limited capacity, enrolment is based on application. Application deadline is Wednesday in week 33 for the autumn semester.
Please see this page for more information: https://www.uib.no/en/matnat/53431/admission-courses-limited-capacity
You will receive confirmation of whether you received a spot in Studentweb no later than Tuesday the week after the deadline.
The first lecture/orientation meeting is compulsory, which means you will lose your spot if you do not attend class that day. The time of the first lecture/orientation meeting can be found in the schedule on the course website or on the "Mitt UiB" learning platform.
Objectives and Content
The course introduces the use of bioinformatics tools, including analysis of protein sequences, retrieval of information from databases, pair wise and multiple sequence alignments, phylogenetic trees, visualisation and analysis of protein structures. Elements of molecular modelling and systems biology are also discussed. The theoretical basis for selected methods, such as dynamic programming, is studied in detail. The course is based on a lecture series, exercises and hands-on tutorials.
On completion of the course the student should have the following learning outcomes defined in terms of knowledge, skills and general competence:
- The student can explain which type of data is available from the most common protein sequence and structure databases (UniProt, GenBank, Protein Data Bank, CATH).
- The candidate can explain the theories underlying the most common methods for sequence searches and sequence alignments, and in particular knows the principle and main steps for pairwise and multiple sequence alignments;
- The student can explain and is able to apply the main steps of dynamic programing for/to simple alignments of short sequences;
- The student can list methods to uncover structure-function relationship in proteins and knows their underlying principles;
- The student can explain the principles of computational methods for the prediction of secondary structure elements from protein sequence, prediction and modeling of three-dimensional protein structures (homology modeling, threading and ab initio methods).
The student is able to:
- select and apply the most appropriate bioinformatics sequence or structure database to retrieve or search data given a specific question in molecular biology;
- select and apply the most appropriate method for aligning sequences, visualizing and analyzing protein structures, predicting secondary structure elements and modeling protein structures from sequence.
- The student is able to reflect using its knowledge and skills in bioinformatics so as to decide whether a given molecular biology problem could benefit from a bioinformatics approach, and which methods to use.
- Using their theoretical knowledge about the most commonly used bioinformatics methods, the student is able, if encountering a new online tool, to get a general understanding of its underlying principle]
Required Previous Knowledge
MOL100/MOL101 or equivalent basic knowlegde of molecular biology or biochemistry.
Recommended Previous Knowledge
MOL200 Metabolism:Reactions, Regulations and Compartmentalization; or equivalent.
Compulsory Assignments and Attendance
Lectures and practical tasks, together with approved reports.
The first lecture/orientation meeting is compulsory.
Forms of Assessment
Written, possibly oral exams depending on number of candidates; approved reports
Examination support materials: Non- programmable calculator, according to model listed in faculty regulations
Due to the measures taken to avoid the spread of Covid-19, UiB is closed for on-campus assessment. As a consequence, the following changes is made to assessment autumn semester 2020:
- Written home examination instead of written examination
The grading scale used is A to F. Grade A is the highest passing grade in the grading scale, grade F is a fail.
Department og Biological Sciences, e-mail: firstname.lastname@example.org
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.
Type of assessment: Written examination
- 18.02.2021, 09:00
- 4 hours
- Withdrawal deadline
- Examination system
- Digital exam