Course Information

Bioinformatics is the use of IT for the treatment and analysis of biological information. In this course, you will learn many bioinformatics tools by completing the following exercises:

• Identify and describe a protein by finding information in NCBI, PubMed, and by BLAST analysis.
• Create your own website using markup language for web pages, HTML.
• Examine a given protein and run a BLAST search and run a multiple sequence alignment. Create a phylogenetic tree basis of alignment to infer which organisms are more or less related. Investigate the subcellular targeting of the protein of interest.
• Perform homology analysis, secondary structure prediction, and gene expression analysis for a given protein.
• Design primers for the purpose of subcloning a gene coding for a given protein into an expression vector and tag with GFP. Analyze the 3D structure of a given protein using Cn3D structure viewer.

PREREQUISITES: none
RECOMMENDED PREREQUISITES: BIK110 Biochemistry and biotechnology, MOT380 Biotechnology methods
CONTENT: With the use of computer exercises, the course provides basic skills in applied bioinformatics (e.g., BLAST searches, gene, protein/enzyme and structural databases (primary and secondary databases), primer construction for cDNA cloning, local and global multiple alignments, construction of phylogenetic trees, and sequence analysis tools) and covers the following subjects: basic use of internet, FTP/SFTP-protocol, hypertext-transfer protocol (http), homepage development by hypertext markup language (HTML).
TEACHING: 2 hrs lectures and 2 hrs practical course. Mandatory work demands (such as hand-in assignments, lab assignments, projects, etc.) must be approved by subject teacher three weeks ahead of examination date.
LITERATURE: Arthur M. Lesk: Introduction to Bioinformatics 5th Edition, Oxford University Press, 2019. ISBN 9780198794141 (optional)
LANGUAGE: English.
EXAM: Home exam
SUPPORTING MATERIALS FOR EXAM: All written and printed means are allowed. Calculators are allowed. All course lectures, assignments, and other important resources can be found by registered students on the course Canvas page.