Syllabus for Bioinformatic Analyses IIa

Bioinformatiska analyser IIa

A revised version of the syllabus is available.

Syllabus

  • 5 credits
  • Course code: 1BG337
  • 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)
  • Established: 2007-03-15
  • Established by: The Faculty Board of Science and Technology
  • Revised: 2007-11-06
  • Revised by: The Faculty Board of Science and Technology
  • Applies from: week 28, 2008
  • Entry requirements: Bioinformatic Analyses I.
  • Responsible department: Biology Education Centre

Learning outcomes

The course focuses on evolutionary analyses and analyses of biological diversity. After the course, the student should be able to:

  • explain and justify different models for sequence evolution

  • explain and evaluate different phylogenetic optimality criteria and choose the appropriate criterion to solve a given problem

  • outline and apply the process to make and evaluate a phylogenetic analysis and explain the different subparts

  • explain the principles of up-to-date multivariate methods

  • choose and apply (for the problem area) existing software on a given biological problem

  • critically analyse, evaluate and compile obtained results

  • Content

    The course mainly deals with bioinformatics with a focus on evolutionary analyses and contains the following parts and aspects:

    Models for sequence evolution and statistical sequence comparisons. Phylogenetics; trees and networks, parsimony, distance methods, probability based methods (maximum likelihood and Bayesian analyses). Multivariate methods for reducing dimensionality and visualisation (for example PCA and MDS). GIS. Databases for biodiversity.

    Modules: Theory 2 credits; computer exercise 2 credits; project 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, the student is required to, by written reports, to pass all computer exercises equivalent to 2 credits and project assignment equivalent to 1 credit. The theory part is examined by a written examination equivalent to 2 credits.

    Reading list

    Reading list

    Applies from: week 28, 2008

    • Xiong, Jin Essential bioinformatics

      New York: Cambridge University Press, 2006

      Find in the library