BT605E: Bioinformatics in English

These days biology handles enormous amount of data generated, among others, in the genome sequencing projects. Thus integration of information technology into biology becomes increasingly important and in consequence, there is a great need for personnel with combined skills in mathematics, computing and biological science. Bioinformatics is a new branch of bioscience which uses computational models and databases to manage DNA and protein sequences for pharmaceutical healthcare and biomanufacturing purposes. The bioinformatics course covers the following areas: [1] accomplishing bioinformatics tasks on UNIX running computers, [2] methods for visualisation of molecular structure (PyMOL), [3] internet resources for molecular biologists, biophysisits and biotechnologists, [4] sequence analysis with applications of EMBOSS package, [5] visual detection of sequence similarities (dotter, dottup, dotmatcher), [6] local and global sequence alignment methods, [7, 8] heuristic algorithms for searching sequence databases (BLAST, FASTA), [9] the practical test, [10] the final test.

Students during the course can collect up to 100 victory points. 20% of them can be collected during lab exercises, 20% are from seminars, 2 x 30% are from two practical tests. The following grading policy is used:

  • F (failing, 2.0) 0-49 pts
  • D (passing, 3.0) 50-59 pts
  • C (average, 3.5) 60-69 pts
  • B (good, 4.0) 70-74 pts
  • B+ (very good, 4.5) 75-79 pts
  • A (excellent, 5.0) 80-100 pts.

Course delivarables:

A student, who completes the course, knows how to:

  • search sequence and literature databases
  • properly use specialized bioinformatics vocabulary and make clear connections between basic terms and research methods
  • identify and quantitatively compare homologous sequences of proteins and nucleic acids
  • recognize the role of bioinfomatics methods in modern biosciences
  • work both individually and collectively on solving typical bioinformatics problems

A student, who completes the course, can:

  • use programs from EMBOSS, BLAST, and FASTA packages to compare sequences and perform various sequence related analyses
  • query bioinformatics services and interpret obtained results


Lectures, computer labs, and seminars:

lectures
  • Wednesday (10:30-12:00, D111, 6h)
computer labs
  • Wednesday (13:00-15:00, D111, 30h)
  • upcoming classes: Apr 26, May 10, May 17
seminars
  • Wednesday (10:30-12:00, D111, 9h)
  • upcoming seminars: Apr 26, May 10
the practical test
  • May 24, 2017



Literature

BioInfoCourses: BioinformaticsInEnglish (last edited 2017-04-12 09:27:34 by KrzysztofMurzyn)