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  . Wednesday (10:30-12:00, D111, 6h)   . Monday (11:00-14:00, D111, 3x3h)
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  . Wednesday (13:00-15:00, D111, 30h)
  . upcoming classes: Apr 26, May 10, May 17
  . Monday (11:00-14:00, D111, 6x3h)
  . the first classes are after the last lecture
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  . Wednesday (10:30-12:00, D111, 9h)
  . upcoming seminars: Apr 18, May 25
  . Monday (11:00-14:00, D111, 3x3h)
  . exact dates will be anounced
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  . May 30, 2018   . tba

BT605E: Essential Bioinformatics

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, 10] the practical test.

Students during the course can collect up to 100 points. 20% of them can be collected during lab exercises, 30% are from seminars, 50% from a practical test. 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) 70-79 pts
  • B+ (very good, 4.5) 80-89 pts
  • A (excellent, 5.0) 90+ 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
  • Monday (11:00-14:00, D111, 3x3h)
computer labs
  • Monday (11:00-14:00, D111, 6x3h)
  • the first classes are after the last lecture
seminars
  • Monday (11:00-14:00, D111, 3x3h)
  • exact dates will be anounced
the practical test
  • tba



Literature

BioInfoCourses: BioinformaticsInEnglish (last edited 2019-11-08 15:47:47 by KrzysztofMurzyn)