Cipher: 1110
Nomenclature: Bioinformatics for beginners
Study programme: Molecular biosciences
Module: elective course (methodological)
Case holder:

Izv.prof.dr.sc. Andrijana Rebekić
Institution of the case holder:

Faculty of Agrobiotechnical Sciences, University of Josip Juraj Strossmayer in Osijek
Contributors - Contractors:
Subject status: Electoral College
The year in which the case is submitted: Year I
The semester in which the case is submitted: Semester I
Subject objective:

Adopt basic concepts of the need to upgrade and acquire knowledge and skills in the field of more advanced bioinformatics, which requires computer application and understanding algorithms and programming.
Case contents:

Part I Bioinformatics using a web browser
Purpose: Teach students where and how they can get information
1.1. What is available on the network and under what conditions?
1.2. PubMed, PubChem and databaze sequences
1.3. Bioinformatics with one sequence
1.3.1. DNA sequence
1.3.2. Protein sequence
1.4. Bioinformatics with multiple sequences - comparison sequences
1.4.1. DNA sequences
1.4.2. Protein sequences
1.5. Specialised base data

Part II Bioinformatics using an offline computer
Purpose: Teach students how to make the most of the information collected on the network
2.1. Personal computer as a bioinformatic computer cell
2.1.1. Windows, Mac or Linux?
2.2. Switching routine and repetitive tasks to the computer
2.2.1. What is programming?
2.2.2. What is Perl?
2.3. Ready-made bioinformatics programs for personal computer

Part III Bioinformatics through practical examples
Purpose: To demonstrate the importance of bioinformatics for practical problems
3.1. Analysis of BLAST reports
3.2. Analysis of paralogues
3.3. Analysis of orthologists
3.4. SNP analysis
Learning outcomes: competences, knowledge, skills that the subject develops:

1. Anticipate the role of bioinformatics in the development of methods and tools for understanding and analyzing biological data.
2. Explain the basic principles of the relational data model (primary and secondary keys, referential integrity of the database.
3. Solve problems identified in the working environment and argue the solution and decision made on the basis of biological data analyses.
4. Assess relevant literature using different databases and critically interpret scientific data in the field of bioinformatics.
ECTS Credits 4
Lectures 20
Seminars (IS) 5
Exercises (E) 0
Altogether 25
The way of teaching and acquiring knowledge:
Ways of teaching and acquiring knowledge: (notes)
Monitoring and evaluating students (mark in fat printing only relevant categories)
Rating method:
Mandatory literature:

1. Gibas, C., Jambeck, P., "Developing Bioinformatics Computer Skills", O'Reilly, 2001
2. http://en.wikipedia.org/wiki/Biological_database
Supplementary (recommended) literature:

1. Molecular Biology of the Gene. J.D. Watson et al., 5th Ed. B. Cummings 2004
2. Bioinformatics. Mount, D., 2nd Ed., Cold Spring Harbour Laboratory Press, 2004
How to monitor the quality and performance performance (evaluation):

- creation of a website with teaching material
- anonymous survey on quality and content of classes, student suggestions for improvement