Course syllabus

Bioinformatik
Bioinformatics

KBK075, 7,5 credits, A (Second Cycle)

Valid for: 2013/14
Decided by: Education Board C
Date of Decision: 2013-04-15

General Information

Main field: Biotechnology.
Elective Compulsory for: MBIO1
Elective for: B4-mb, B4-pt
Language of instruction: The course will be given in English on demand

Aim

The course aims at giving a theoretical knowledge in bioinformatics and its potentials. The aim is also to give practical experience in searching bioinformatics databases and to use bioinformatics software.

Learning outcomes

Knowledge and understanding
For a passing grade the student must

Competences and skills
For a passing grade the student must

Judgement and approach
For a passing grade the student must

Contents

The course comprises knowledge about bioinformatics databases, as well as software that searches such databases. Additionally, the course comprises basic knowledge about software and algorithms that can predict nucleotide or amino acid sequence's biochemical or molecular biology properties and functions. Conceptions such as FASTA format, BLAST, archival & curated database, accession number, cross reference, data base field, Boolean qualifiers, In silico, alignment, algorithm, Hidden Markov Model, Neural Networks, cluster, phylogenetic analysis, phenetic & cladistics approaches, bootstrapping, gap penalties, substitution matrices, homology modelling, threading and Ab Initio modelling are explained. An overview about systems biology and synthetic biology are given.

Examples on practical exercises are: database searching (both search using words and searching for sequences matching a known sequence) as well as interpretation of search results, phylogenetic evaluation of the probability that a dentist has infected his patients with HIV, theoretical development of a PCR method that could determine the gender of a human DNA sample, and exercises in protein modelling.

Examination details

Grading scale: TH
Assessment: Problem orientated individually written home exam. Degree is given on the home exam result. Passed report from computer exercises.

Admission

Admission requirements:

The number of participants is limited to: No

Reading list

Contact and other information

Course coordinator: Forskare Johan Svensson-Bonde, Johan.Bonde@tbiokem.lth.se
Course homepage: http://www.tbiokem.lth.se