Course: Data Mining in Bioinformatics

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Course title Data Mining in Bioinformatics
Course code UAI/665
Organizational form of instruction Lecture + Lesson
Level of course Bachelor
Year of study not specified
Frequency of the course In each academic year, in the winter semester.
Semester Winter
Number of ECTS credits 4
Language of instruction English
Status of course Optional
Form of instruction Face-to-face
Work placements This is not an internship
Recommended optional programme components None
  • Skrbek Miroslav, Ing. Ph.D.
Course content
1. Introduction, goals of data mining, knowledge extraction process 2. Data sources, data types, methods and formats for data storage 3. Statistics: mean, variance, median, correlation, normal distribution 4. RapidMiner, basic principles, simple project creation 5. Preprocessing: data normalizing, feature extraction from data, text documents, web pages and images 6. Dimension reduction of data, Principal Component Analysis, feature ranking and feature selection 7. Metrics and cluster analysis 8. Simple models of data: linear and logistic regression 9. Data modeling: decision trees, association rules 10. Classifiers: k-NN, Naive Bayes classifier 11. Model evaluation and testing 12. Advanced modeling methods 13. Interpreting results and report creation

Learning activities and teaching methods
Monologic (reading, lecture, briefing)
  • Preparation for exam - 40 hours per semester
  • Class attendance - 39 hours per semester
  • Semestral paper - 40 hours per semester
Learning outcomes
The aim of the course is to teach students the basis of data mining directed to bioinformatics. The course provides topics covering the complete process of data mining: data acquisition, data pre-processing, data analysis, knowledge extraction, data visualization and reporting.
The student acquires basic knowledge in data mining and practical experience with data mining tool.
Programming in Java. Excel and basic knowledge of statistics and operating systems.

Assessment methods and criteria
Written examination, Seminar work, Interim evaluation

Each student may take 100 points (55 points examination, 45 points tutorial). The assessment requirement is equal to 25 points per semester. For passing examination, the total number of points (examination and tutorial) must be greater or equal to 50 and the examination test must be evaluated to one half points or more. If any of these conditions is not satisfied, the student fails.
Recommended literature
  • Berka P. Dobývání znalostí z databází. Academia.

Study plans that include the course
Faculty Study plan (Version) Category of Branch/Specialization Recommended year of study Recommended semester
Faculty: Faculty of Science Study plan (Version): Bioinformatics (1) Category: Informatics courses - Recommended year of study:-, Recommended semester: Winter