Syllabus for Phylogenetic Analysis

Fylogenianalys

  • 5 credits
  • Course code: 1MB515
  • Education cycle: Second cycle
  • Main field(s) of study and in-depth level: Technology A1F, Bioinformatics A1F

    Explanation of codes

    The code indicates the education cycle and in-depth level of the course in relation to other courses within the same main field of study according to the requirements for general degrees:

    First cycle
    G1N: has only upper-secondary level entry requirements
    G1F: has less than 60 credits in first-cycle course/s as entry requirements
    G1E: contains specially designed degree project for Higher Education Diploma
    G2F: has at least 60 credits in first-cycle course/s as entry requirements
    G2E: has at least 60 credits in first-cycle course/s as entry requirements, contains degree project for Bachelor of Arts/Bachelor of Science
    GXX: in-depth level of the course cannot be classified.

    Second cycle
    A1N: has only first-cycle course/s as entry requirements
    A1F: has second-cycle course/s as entry requirements
    A1E: contains degree project for Master of Arts/Master of Science (60 credits)
    A2E: contains degree project for Master of Arts/Master of Science (120 credits)
    AXX: in-depth level of the course cannot be classified.

  • Grading system: Fail (U), Pass (3), Pass with credit (4), Pass with distinction (5)
  • Established: 2018-03-06
  • Established by:
  • Revised: 2018-08-30
  • Revised by: The Faculty Board of Science and Technology
  • Applies from: week 30, 2019
  • Entry requirements: 120 credits as well as Molecular Evolution
  • Responsible department: Biology Education Centre

Learning outcomes

After completing the course the student should be able to:

  • explain and evaluate different phylogenetic optimality criteria and choose the appropriate criterion to solve a given problem
  • plan, carry out and evaluate a phylogenetic analysis as well as explain the different components

Content

Phylogenetic trees and other models for evolutionary relationships. Optimality criteria for choice of hypothesis. Substitution models for DNA and other types of data. Super-trees, consensus trees, compatibility between trees. Algorithms for evaluation of the tree space; Markov Chain Monte Carlo, genetic algorithms. Evaluation of result of phylogenetic analyses, dating of phylogenies.

Instruction

Lectures, seminars and computer exercises.

Assessment

Written examination (3 credits), computer exercises (2 credits).

If special circumstances apply, the examiner can make exceptions from the stated exam method and decide that a student is assessed in a different way. Special causes can e g be notice of special educational support from the coordinator of the university for students with disabilities.

Reading list

The reading list is missing. For further information, please contact the responsible department.