ECS 129 COMPUTATIONAL STRUCTURAL BIOINFORMATICS
(4) I
Lecture: 3 hours
Discussion: 1 hour
Prerequisite: College level programming course; Biological
Science 1A or Molecular and Cellular Biology 10
Grading: Letter; assignments (30%), quizzes (30%), final
(40%)
Catalog Description:
Fundamental biological, chemical and algorithmic models underlying computational
structural biology; protein structure and nucleic acids structure; comparison
of protein structures; protein structure prediction; molecular simulations;
databases and online services in computational structural biology.
Expanded Course Description:
- Introduction: Top Challenges in Bioinformatics
- Bio-molecular Structures
- Nucleic acids
- Protein
- Comparing Sequences and Structures
- Sequence alignment
- Structure alignment
- Protein Structure Databases
- Protein domains
- Protein structure classification
- Stability of Bio-molecules
- Semi-empirical energy functions
- Statistical potentials
- Bio-molecular Simulations
- Drug Design
- Databases and Web Services
Textbook:
Selected review papers and technical papers and class notes will be used.
ABET Category Content::
Engineering Science: 1 unit
Engineering Design: 0 unit
Goals:
Students will:
- understand the challenges currently faced by structural bioinformatics
- be able to understand and efficiently use the tools currently available
in this field
- develop an interest to pursue research in bioinformatics
Student Outcomes
- An ability to apply knowledge of mathematics, science, and engineering
- An understanding of professional and ethical responsibility
- An ability to communicate effectively
- The broad education necessary to understand the impact of engineering solutions in a global, economic, environmental, and societal context
- A recognition of the need for, and an ability to engage in life-long learning
- An ability to use the techniques, skills, and modern engineering tools necessary for engineering practice
Instructor: P.
Koehl
Prepared by: P. Koehl (November 2005)
Overlap Statement:
ECS 124 (Theory and Practice of Bioinformatics) and ECS 129 are complementary
courses with minimal overlap covering bioinformatics. ECS 124 focuses on
sequence analysis, while ECS 129 covers the structural challenges in bioinformatics.
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