Syllabus for Genome Bioinformatics

Genombioinformatik

Syllabus

  • 5 credits
  • Course code: 1MB445
  • Education cycle: Second cycle
  • Main field(s) of study and in-depth level: Technology A1F, Bioinformatics A1F
  • Grading system: Fail (U), Pass (3), Pass with credit (4), Pass with distinction (5)
  • Established: 2010-03-16
  • Established by: The Faculty Board of Science and Technology
  • Applies from: week 27, 2010
  • Entry requirements: 120 credits inclusive Genomics-experimental methods, Methods in bioinformatics and Genome biology.
  • Responsible department: Biology Education Centre

Learning outcomes

The course focus on bioinformatic analyses of large-scale sequence data.

After the course the student should be able to


  • assemble raw sequence data into genome assemblies and/or to existing reference genome sequences

  • identify and annotate genes and other coding information in genome sequences and critically analyse existing annotations

  • analyse large-scale sequence data with respect to, for example, gene expression, genome function, genome evolution, and variations within populations

  • identify evolutionary and ecologically interesting aspects in large-scale sequence data

  • select sequence technology and apply existing software on given biological problems in the subject

  • critically analyse, evaluate and assemble obtained results from large-scale sequence analyses

Content

The course deals with bioinformatics with the focus on analyses of large-scale sequence data sets and contains the following sections and aspects:

Methods for large-scale sequencing and their different applications. Assembly of raw sequence data into assembled genomes. Alignment of raw sequence data to existing reference genomes. Principles for annotation of genes and other biological information, annotation systems, problems associated with automation of the annotation process. Bioinformatic aspects of different approaches to study genome function, variation and evolution using large-scale sequencing. Bioinformatic aspects of metagenomics.

Instruction

The teaching is given in the form of lectures, seminars and computer exercises.

Assessment

The theory part of the course is examined by a written theoretical examination and participation in seminars, equivalent to a total of 3 credits. Active participation in at least 80% of the seminars is required to pass. To pass the practical part, it is required that all computer exercises equivalent to 2 credits has been presented in writing and is passed.

Reading list

Reading list

Applies from: week 28, 2010

  • Zvelebil, Marketa J.; Baum, Jeremy O. Understanding bioinformatics

    New York: Garland Science, c2008

    Find in the library