Section outline

    • Oznámení Forum

    • Introduction to applied bioinformatics

      voluntary subject

      Assoc. Prof. Ing. Petra Matoušková, Ph.D.

      contact: matousp7@faf.cuni.cz

    • course aims

      The aim of this course is to learn basics about the bionformatics data, mainly gene and protein sequences, the formats, retreiving of the databases, comparison, search for similarity etc.

      The lectures are in the computer study room (S2250)

    • Organisation

      credit: 

      presence (8/10) + homeworks: ¨HW" from each lecture.

      exam: 

      "written" by computer, 2 set of 5 tasks (1hour/ submitted via Moodle)

    • Example of all HWs (in czech) Fichier

    • Literature

      Applied bioinformatics - An introduction, P. Selzer, 2018

      Bioinformatics for dummies, J.M. Claverie, C. Notredame, 2007

      Knowledge Discovery in Bioinformatics, X. Hu, Y. Pan, 2007

    • Topics

      1. Literature search

      2. Protein bioinformatics I - sequences, features, digestions

      3. Protein bioinformatics II - domains, transmembrane helices, BLAST

      4. Protein bioinformatics III + sum up I - sequence comparison, multiple alignmet, 3D

      5. Nucleotide bioinformatics I - sequences, features

      6. Nucleotide bioinformatics II - translation, identification, sequencing

      7. Nucleotide bioinformatics III - RE digestion, primers

      8. Nucleotide bioinformatics IV -  cloning, specific primers

      9. Nucleotide bioinformatics V - qPCR primers, DNA/RNA secondary structure, mutagenesis primers

      10. Summary, examples

      11. Exam 2021