[ 675GTSBSAPV16 ] VL Sequence Analysis and Phylogenetics

Workload Education level Study areas Responsible person Hours per week Coordinating university
3 ECTS B2 - Bachelor's programme 2. year (*)Bioinformatik Sepp Hochreiter 2 hpw Johannes Kepler University Linz
Detailed information
Original study plan Bachelor's programme Bioinformatics 2016W
Objectives Bioinformatics is an interdisciplinary field at the interface of life sciences and computational sciences that deals with the development and application of methods for storing, retrieving, and, in particular, analyzing biological data. The massive data amounts produced by recent and currently emerging high-throughput biotechnologies provide unprecedented potentials, but also pose yet unseen computational challenges – making bioinformatics an essential success factor for the advancement of fields, such as, molecular biology, genetics, medicine, and pharmacology.

This course focuses on basic methods for comparing biological sequences, such as, DNA, RNA, and amino acid sequences. This is complemented by an introduction to the field of phylogenetics, which is concerned with identifying evolutionary relationships among groups of organisms. No prior knowledge in biology is required for this course. Basics of molecular biology are provided up to the minimum that is necessary to understand the ideas behind the bioinformatics tools and algorithms discussed in this lecture.

  • Basics of molecular biology
  • Simple sequence comparisons and scoring schemes
  • Pairwise sequence alignment
  • Statistical analysis of sequence alignments
  • Multiple sequence alignment
  • Methods for computing evolutionary distance
  • Methods for computing phylogenetic trees
Criteria for evaluation Written exam
Methods Slide presentations complemented by examples presented on the blackboard
Language English
Study material
  • D. W. Mount, Bioinformatics: Sequences and Genome analysis, CSHL Press, 2001
  • D. Gusfield, Algorithms on strings, trees and sequences: computer science and computational biology, Cambridge Univ. Press, 1999
  • R. Durbin, S. Eddy, A. Krogh, G. Mitchison, Biological sequence analysis, Cambridge Univ. Press, 1998
  • M. Waterman, Introduction to Computational Biology, Chapmann & Hall, 1995 
  • Setubal and Meidanis, Introduction to Computational Molecualar Biology, PWS Publishing, 1997
  • Pevzner, Computational Molecular Biology, MIT Press, 2000
  • J. Felsenstein: Inferring phylogenies, Sinauer, 2004
  • W. Ewens, G. Grant, Statistical Methods in Bioinformatics, Springer, 2001
Changing subject? No
Corresponding lecture 875BIN1SAPV12: VL Sequence Analysis and Phylogenetics (3 ECTS)
Earlier variants They also cover the requirements of the curriculum (from - to)
875BIN1SAPV12: VL Sequence Analysis and Phylogenetics (2012W-2016S)
On-site course
Maximum number of participants -
Assignment procedure Direct assignment