REGARDING THE BIO 466 BIOPHYSICS COURSE
SPRING 2009-2010
BIO 466 BIOPHYSICS
Office: FENS G021
Email: dsezer@sabanciuniv.edu
Phone: 483-9881
Office Hours:
Wednesday 15:00 – 17:00 FENS G021
Lecture Hours:
Wednesday 12:40 – 13:30 FASS G056 (in class quiz)
Thursday 12:40 – 13:30 FASS G056 (homework due)
Course Description: The objective of this course is to introduce the students to concepts and techniques in theoretical biophysics. To this end, a selection of basic molecular processes encountered in courses on molecular and cell biology will be examined from a quantitative perspective. Throughout, the non-equilibrium and single-molecule (stochastic) aspects of these processes will be emphasized. In addition to weekly quizzes and homework, students will be expected to write a concise report introducing a biophysical problem of their choice and summarizing the status of its current scientific understanding.
Course Content:
1. Biology and Numeracy
· Cells and organisms
· Molecular strategies
2. Statistical Thermodynamics and Models
· Mechanical and chemical equilibrium in the cell
· Ideal gases, ideal solutions and lattice models
· The random walk model and protein folding
3. Enzymes and Signals
· Thermodynamics and kinetics of ligand binding
· Allosteric cooperativity and regulatory domains on a leash
· Fluctuating enzymes and dynamic cooperativity
· Error reduction through kinetic proofreading
4. Cell Shape and Motility
· Diffusion, flow and chemoreception
· Why don’t bacteria swim like fish?
· The dynamic cytoskeleton
· Molecular motors and diffusion under force
5. Biological Electricity
· Electrostatics of solutions
· Membrane permeability and ion channels
· Action potential and nerve impulses
6. Quantum Mechanics in Biology
· Electron and proton transfer in biomolecules
· Photosynthesis and respiration
Textbooks:
1. Physical Biology of the Cell, Rob Phillips, Jane Kondev, Julie Theriot. Our main textbook.
2. Molecular Driving Forces, Ken Dill, Sarina Bromberg. Supplementary textbook.
3. Biological Physics, Philip Nelson. Supplementary textbook.
All textbooks are available on library reserve.
Evaluation:
· Weekly Homework: 10 %
· Weekly Quizzes: 15 %
· Term Report: 20 %
· Midterm Exam: 25 %
· Final Exam: 30 %