BME 232 Introduction to Computational Biology (2016-2017)

BME 232 Introduction to Computational Biology

(Not required for any major.)
Catalog Data:

BME 232 Introduction to Computational Biology (Credit Units: 4) The use of theories and methods based on computer science, mathematics, and physics in molecular biology and biochemistry. Basics in biomolecular modeling. Analysis of sequence and structural data of biomolecules. Analysis of biomolecular functions. Graduate students only. Same as MOLBIO 223. Concurrent with BME 132, COMPSCI 183, BIO SCI M123. (Design units: 0)

Required Textbook:
. Edition, , 1969, ISBN-13 978-0582382107.

Recommended Textbook:

Lecture material as provided on the class website.

Ray Luo
Relationship to Student Outcomes
This course relates to Student Outcomes: EAC a, EAC b, EAC d, EAC e.
Course Learning Outcomes. Students will:

1. This course will proved the graduate student in Biomedical Engineering with the knowledge and understanding for analyzing and simulating molecules of biomedical importance.

2. Define computational problems for biomolecules of biomedical importance. (EAC a, EAC b, EAC d)

3. Understand numerical techniques typically encountered in bimolecular research. (EAC a, EAC b)

4. Formulate solutions as algorithms. (EAC a, EAC b, EAC e)

5. Read, synthesize, and critically evaluate research in biomedical engineering.

6. Communicate effectively both orally and in writing on research issues related to biomedical engineering.

Prerequisites by Topic

Calculus, Basic Statistics, Computer Literacy, General Chemistry, General Physics

Lecture Topics:
  • Biomolecular structures
  • Biomolecular graphics
  • Thermodynamics and molecular interactions
  • Molecular mechanics
  • Molecular dynamics
  • Monte Carlo
  • Solvation and electrostatics
  • Free energy and drug design
Class Schedule:

Meets for 3 hours of lecture each week for 10 weeks.

Computer Usage:

Homework involves computer visualization and simulation tutorials.

Laboratory Projects:


Professional Component


Design Content Description
Laboratory Portion:
Grading Criteria:
  • Homework: 20%
  • Final Presentation: 80%
  • Total: 100%
Estimated ABET Category Content:

Mathematics and Basic Science: 0.0 credit units

Computing: 0.0 credit units

Engineering Topics: 0.0 credit units

Engineering Science: 0.0 credit units

Engineering Design: 0.0 credit units

January 22, 2016
Senate Approved:
June 7, 2016
Approved Effective:
2016 Fall Qtr