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Undergraduate course

Applied Bioinformatics

  • ECTS credits10
  • Teaching semesterAutumn
  • Course codeMOL204
  • Number of semesters1
  • LanguageEnglish
  • Resources

Semester of Instruction

Autumn. The course has a limited number of places. http://www.uib.no/en/matnat/53431/admission-courses-limited-capacity

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.

Learning Outcomes

On completion of the course the student should have the following learning outcomes defined in terms of knowledge, skills and general competence:

Knowledge

- 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).

Skills

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.

General competence

- 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.

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

Grading Scale

The grading scale used is A to F. Grade A is the highest passing grade in the grading scale, grade F is a fail.

Subject Overlap

 

Contact

Contact Information

Study advisor at the Departement of Molecular Biology, advice@mbi.uib.no

Exam information

  • Type of assessment: Written exam

    Date
    12.12.2017, 09:00
    Duration
    4 hours
    Withdrawal deadline
    28.11.2017
    Examination system
    Inspera
    Digital exam