BE6003/Physiol 6003 Cellular Electrophysiology and Biophysics Course Web Page for Fall 2010

Important Course Organizational Information

This web site is for the Bioengineering course, which is running in the fall semester of 2010. If you are seeing this site after that semester, then treat this as history that may change before we teach the course again, probably in 2012.

• Note class time! Class time and location: Monday and Wednesday 10:45-12:15 CVRTI library/meeting room on the main floor.
• College of Engineering course withdrawal notice (PDF)
• Course Announcement please forward to anyone who might be interested in the course.
• Course Syllabus (HTML) and in PDF format.
• Please sign up for the course as Bioen 6003 or Physiology 6003 if you are a Physiology graduate student.
• Course text: there is no assigned text but rather the following suggested sources for background. We will provide lecture notes or litature as needed for the classes.
  • Ion Channels of Excitable Membranes by Bertil Hille.
  • The Physiology of Excitable Cells by David Aidley.
  • Heart Physiology by Lionel Opie.
• Course mailing list: to sign up for the class mailing list send an email addressed to:
  sympa@sci.utah.edu
  with this line in the message body.
  

  	subscribe be-6003 your_name
        

  for example,

  	subscribe be-6003 john doe
        

  You will be sent back a confirmation request just to make sure you really do want to be in the list. After that, you will get all messages sent to the address be-6003@sci.utah.edu
  

Course Notes in PDF format

• Week 1: Rob MacLeod on Intro and Background Physics/Math
  • Introduction and Logistics
  • Background Physics and Mathematics
• Week 2: John White on membrane structure and basic EP
  • Ion Transport, Resting Potential, and Cellular Homeostasis
  • and associated slides
• Week 3: John Bridge on resting potential and Donan Equillibrium
  • Resting potentials and Donan Equillibrium
• Week 4: John Bridge on Action potentials and Excitation Contraction Coupling
  • Action potentials
  • EC Coupling
• Weeks 5/6: Mike Sanguinetti on Ion Channels.
  • Week 5: Structural basis of voltage-gated ion channel function.
  • Week 6: Ion Channel Diversity and Characterization .
• Week 7: Frank Sachse on Modeling Ion Channels
  • Modeling of Ion Channels Pt 1
  • Modeling of Ion Channels Pt 2
• Week 9-10: John White on Neurons
  • Neurons PT 1
  • White article
  • Neurons PT 2
• Week 11: Frank Sachse on Cellular Simulations

  Note: due to sudden family illness, Dr. MacLeod will not be able to attend the class this week. Dr. Sachse has kindly agreed to hold Wednesday's lecture. So the Monday lecture is CANCELLED.

  • Integrative modeling of the cardiac ventricular myocyte by Rai Winslow , the reading assignment instead of Monday's class.
  • Slides from class
  • Background: Cell simulation
  • Cell simulation software
  • Simulation movie of nerve AP
  • Simulation movie of cardiac AP
• Week 13: Alonso Moreno on Cardiac Cell-to-Cell Communication
  • Cell-to-cell communication Pt 1
  • Cell-to-cell communication Pt 2
    Background papers
    • Moreno 1995 paper.
    • Harris 2001 paper.
    • Delmar 2004 paper.
    • Moreno 2007 paper.

Laboratory Exercises

Lab #	Date	Topic/Description	Links/Data/Comments
1	Week 8: Monday, October 25, 10:30-1:30	Ion Channel Lab: Voltage clamp of Xenopus oocytes
2	Week 12: Monday Nov 22, 10:30-3:30 at CVRTI (Rooms 222, 052A, and 126)	Lab description for optical methods lab	Report due: Monday, Dec 6 at 5:00 pm
		Lab schedule
		Digitalis protocol
		Data processing background
		Single Cell signal processing
		Aligned Action Potentials
		Fluorescence background
		CCD Camera background
		Photo bleaching background
3	Week 14: Monday, Dec 6, 10:30-1:30 in CVRTI lecture room	Simulation of cardiac cellular electrophysiology	Report due: Dec 17, 2010 at 5:00 pm

Reading Assignments

Homework Assignments

The Assignments

TBA

Useful links and course background material

• Syllabus in HTML, also available as PDF file
• Current-Voltage Curve Tutorial by James Dilger at Stonybrook University.
• Some notes on effective reading (and writing) of science papers from Dana Brooks (Northeastern University)
• The Science of Scientific Writing, also in pdf format . This is the best article I know for scientific writing. Mandatory reading!
• MATLAB information
• Additional CV physiology and bioelectricity background information.

Course Notes from Past Editions of the Course (just for general reference)

• Week 1: Rob MacLeod on Intro and Background Physics/Math
  • Introduction and Logistics
  • Background Physics and Mathematics
• Week 2: John Bridge on Membrane structure and resting potential
  • Membrane Structure
  • Hodgkin-Katz paper
• Weeks 3-5: Mike Sanguinetti on Ion Channels.
  • Week 3: Structural basis of voltage-gated ion channel function.
  • Week 4: Ion Channel Diversity and Characterization .
• Week 6: Frank Sachse on Modeling Ion Channels
  • Modeling of Ion Channels Pt 1
  • Modeling of Ion Channels Pt 2
• Week 7: John Bridge on Cardiac Cell Function
  • Cell function Pt 1
  • Cell function Pt 2
• Week 8-9: John White on Neurons
  • Neurons PT 1
  • Pruston review article
  • White article
  • Neurons PT 2
• Week 10: Rob MacLeod on Cellular Simulations
  • Cell simulation
  • Cell simulation software
• Week 12: Alonso Moreno on Cardiac Cell-to-Cell Communication
  • Cell communication Pt 1 software
  • Moreno 1995 paper.
  • Harris 2001 paper.
  • Delmar 2004 paper.
  • Moreno 2007 paper.
• Week 14: John Bridge on Excitation Contraction Coupling
  • EC Coupling
• Week 15: Steve Poelzing on Second Messenger Systems
  Please read the first two papers for Monday's lecture and the second two for Wednesday.
  1. Modulation of calcium by sympathetic activation
  2. Regulation of L-Type Ca2+ Channels by Protein Kinases and Phosphatases
  3. Multiple downstream proarrhythmic targets for calmodulin kinase II
  4. Combination Therapy with Beta-Adrenergic Receptor Antagonists and Phosphodiesterase Inhibitors for Chronic Heart Failure