Avsnittsöversikt

►Exercises

  • Teaching


    Teacher     Marc Hellmuth

    Course literature (the following books cover a broad range of topics covered in this course)
    • An Introduction to Bioinformatics Algorithms, Jones and Pevzner, MIT Press, 2004
    • Introduction to Computational Biology, Waterman, Chapman & Hali, 1995

    • Algorithmic Aspects of Bioinformatics, Böckenhauer and Bongartz, Springer, 2007
    • Algorithms on Strings, Trees, and Sequences, Gusfield, Cambridge University Press, 1997
    • Phylogenetics, Semple and Steel, Oxford University Press. 2003
     
    Further interesing paper:

     

    Schedule
    The full course schedule is online

    ALL lectures will be offline (TUE and FRI 10-12, Lärosal 14, Albano Hus 2, Vån 2)

    The lectures in the week 7 (Feb 8-13) will be replaced by video-lectures 
    Videos can be found under resources and here https://video.su.se/channel/DA7065+Computational+Biology+VT22/494275/subscribe

    Please watch these videos in this order:

    • Video "Lesson 8 - Phylogenetics(Part1)" the first ~44min                             (Intro Phylogenetic)
    • Video  "Lesson 10 - Phylogenetics(Part3)"  the first ~42min                         (Phylo: Parsimony)
    • Video "Lesson 8 - Phylogenetics(Part1)" from position 44min to end         (Phylo: UPGMA)
    • Video  "Lesson 9 - Phylogenetics(Part2)" the first ~30min                            (Phylo: UPGMA + ultrametrics)

      [if you download the videos, then you may use the VLC player]





    Content (Main topics that will be covered and Aim)

        Computational problems in molecular biology
        Formalization of biological problems (i.e.: how to turn a fuzzily described problem to a mathematical/computational problem)
        Algorithmic techniques for solving common problem in molecular biology
        Function and implementation of important bioinformatics software

     

     

    Examination
     
    There will be three home assignments worth 6 credits and one oral/written exam worth 1.5 credits
     
    PhD-students that take this course as part of their PhD-credits, will get additional exercises (that is, you must complete all three home assignments + exam + some extra tasks)

    No cooperative hand-ins or hand-ins created with the help of ChatGPT, AI & Co are allowed (and will be treated as cheating/plagiarism)!
     
     

    Resources

    Here you can find the teaching material (e.g. Slides, Script and Videos)..

►Exercises