Fall 2009 - University of Tulsa
Special Topics: Bioinformatics
CS 4863/6863
KEP U10
MWF 01:00PM-01:50PM
Brett McKinney, PhD
Textbook: Introduction to Bioinformatics, 3rd edition.  Arthur Lesk.

Bioinformatics is a multidisciplinary field that incorporates a broad set of tools and methods to make sense of the vast amount of biological data that is accumulating.  The goal of this course is to give a general overview of modern bioinformatics techniques and for students to gain experience using various tools. A broad student audience is targeted: computer science, mathematics, biochemistry, physics, and biology.  If there are special topics of interest that are not represented below, please contact brett.mckinney@gmail.com.

Topics:

• Biology in a Nutshell
• Probability and Statistics in a Nutshell
• More on Nutshells
  
• Gene Ontology, Pathways, and other Databases
  
• DNA and Protein Sequence Alignment
• Dynamic programming
• Multiple sequence alignment
• Blast
  
• Phylogenetics
• Genome Analysis
• Genome-wide association studies
• Supervised microarray analysis, gene/protein expression
• Cluster/unsupervised analysis
  
• Structural Informatics
• 3D protein structure, folding
  
• Homology modeling
• Protein-protein docking
• Neuroinformatics
• Immunoinformatics
  
• Biomathematics
• Predator-prey models
• Ecological models
• Biochemical kinetic