COMP 572 / BIOS 572 / BIOE 564
BIOINFORMATICS: NETWORK ANALYSIS
Fall 2011

Staff

Course Information

• MEETING TIME AND PLACE: Tuesday and Thursday, 2:30-3:45; Duncan Hall (DCH) 1075.
• TEXTBOOK:The following books are highly recommended (but not required) for the course, and are also highly recommended if you are interested in computational network analysis techniques. We will follow the book by Klipp et al. closely.
  1. Systems Biology: A Textbook, E. Klipp et al., Wiley-Blackwell, 2009.
  2. Principles of Computational Cell Biology, V. Helms, Wiley-Blackwell, 2008.
  3. An Introduction to Systems Biology: Design Principles of Biological Circuits, U. Alon, Chapman and Hall/CRC, 2006.
  4. Computational Modelling of Gene Regulatory Networks -- A Primer, H. Bolouri, Imperial College Press, 2008.
• INTENDED AUDIENCE: This is a course about mathematical modeling and computational analysis of (mainly) cellular networks (protein-protein interaction, metabolic networks, transcription regulation, and signal transduction). As such, the course requires knowledge in math (mainly Algebra, and occasionally differential equations) and computer science (algorithms, graph theory,...). Further, the course will involve using tools to model biological systems, as well as writing computer programs/scripts to enable analyses.
• TOPICS TO BE COVERED: graph theoretic properties of biological networks, modeling network dynamics, inference of network parameters, integrating networks, and evolution of networks.
• GRADING:
  • Homework assignments: 50% (done individually).
  • Project: 50% (may be done in groups, with instructor's permission).
• STUDENTS WITH DISABILITY: Any student with a documented disability needing academic adjustments or accommodations is requested to speak with me during the first two weeks of class. All discussions will remain confidential. Students with disabilities will need to also contact Disability Support Services in the Ley Student Center.

Course Material