Bioengineering/Physiology 6000:
System Physiology I: Cardiovascular,
Respiratory, and Renal Systems
Spring of 2012 Edition
Note: this class makes heavy use of Canvas for submission of all assignments.

Spring 2012 Deadlines and Dates

Here are the current (and past) deadlines for the class.

Monday, January 9: first day of class

Monday, January 16: Martin Luther King Holiday

Friday, January 27: Lab report #1 (dissection) due

Monday, February 13: Homework #1 (Membrane Simulation) due (5:00 pm on Canvas)

Friday, Feb 17: Resubmission of Lab report #1 due (on Canvas)

Friday, Feb 24: Midterm #1 (in class)

Friday, March 2: Lab report #2 (frog lab) due (on Canvas)

Wednesday, March 21: Outline for term paper due
Monday, March 26: Lab report #4 (Simulation) due
Friday, March 30: Midterm #2
Monday, April 2: Lab report #2 (ECG lab) optional resubission due
Monday, April 2: Lab report #3 (ECG lab) due
Monday, April 2: Protocol for Lab 5 due
Monday, April 23: Lab report #5 (BP and Exercise) due
Tuesday, May 1, 8:00-10:00 Final Exam (in regular classroom)
Friday, May 4: Lab report #6 (Control of Respiration) due
Monday, May 7: Term paper due

Important Course Information

If you have questions about the course please contact Rob MacLeod for any questions.

Note: this class makes heavy use of Canvas for submission of all assignments.
Still slightly tentative but always-dynamic Course Syllabus ,(PDF Acrobat format).
Class schedule.
Doodle poll for signing up for lab days. Please check here to see which day you signed up for which lab.
A LaTeX template for lab reports, included as a zipped archive file that will create a LaTeX subdirectory with all the files necessary.
College of Engineering Course Guidelines.
Midterm #1 comments in PDF format.
Midterm #2 comments in PDF format.

Course Lecture Notes

Lecture block 1 (Rob MacLeod): Introduction
- Lecture slides in PDF format (3.8 MB)
Lecture block 2 (Rob MacLeod): Experimental Methods
- Lecture slides in PDF format (3.5 MB)
Lecture block 3 (Rob/Jess): Cardiac Cellular Electrophysiology
Lecture block 5 (Rob MacLeod): Cadiac Tissue Structure and Function
- Lecture slides in PDF format (15 MB)
- Living Arrhythmias movie (45MB)
Lecture block 6: (Jess Tate) Arrhythmias and the ECG
- Lecture slides in PDF format (12 MB)
- Taccardi video (165 MB)
- Taccardi video (224 MB) (larger but better quality).
Lecture block 7 (Rob MacLeod): Cardiac Mechanics
- Cardiac mechanics (9 MB)
- Review article on EC Coupling by Don Bers.
- Video: Normal cardiac structure and EC coupling (5.2 MB)
- Video: Effect of hypertension on EC coupling (3.4 MB)
- Video: Effect of dilated cardiomypoathy on EC coupling (3.4 MB)
Lecture block 8 (Jess): Intro to Circulation System
- Lecture slides in PDF format (1.6 MB)
Lecture block 9: (Darrell) Hemodynamics
- Lecture slides in PDF format (1.5 MB)
Lecture block 10: (Rob) Arteries and Veins
- Lecture slides in PDF format (3 MB)
Lecture block 11: Microcirculation (Jess)
- Lecture slides in PDF format (3.5 MB)
Lecture block 12: Control of circulation
- Lecture slides in PDF format (2 MB)
Lecture block 13: Gases and Gas Transport
- Lecture slides in PDF format (7 MB)
Lecture block 14: Acid-base balance and respiration
- Lecture slides in PDF format (2 MB)
Lecture block 15: Lung structure and function
- Lecture slides in PDF format (7 MB)
Lecture block 16: Control of Ventilation
Lecture block 17: Osmotic Balance
- Lecture slides in PDF (9 MB)
Lecture block 18: The Kidney
- Lecture slides in PDF (9 MB)

Test Information

Sample test, just to view the test format. A real mid term will include more questions.
Comments on the sample test
Midterm #1 study topics in PDF format (February 24, 2012).
Midterm #1 Comments
Midterm #2 study topics in PDF format (March 30, 2012).
Final study topics in PDF format (May 1, 2012).

Laboratory Exercises

Note: all lab assignments and grading will take place using Canvas .
Doodle poll to sign up for lab days.
Lab report general guidelines.
Lab #1 report specific guidelines.
A LaTeX template for lab reports, included as a zipped archive file that will create a LaTeX subdirectory with all the files necessary.
Lab grading rubric . Please use this to make sure lab reports contains all the essentials. We will grade the reports based on this rubric. Note that not each item in the list will receive equal value in computing the total grade.
And did we mention that Canvas is important to pay attention to?
Lab #6 Slides

Lab # Date Topic/Description Links/Data/Comments

1 Friday, Jan 14 Dissection of bovine heart/lungs (also in pdf version ) Comments on lab reports (pdf)

2 Friday/Monday, Feb 10/13 Regulation of heart rate and contraction (frog) Comments on lab reports (pdf)

3 Friday/Monday, March 24/27 ECG lab BSPM data
4 Wednesday/Friday, March 7/9 in HSEB 3100B Simulation Lab, ECG simulation

5 Friday/Monday, April 6/9 Exercise and blood pressure

6 Friday/Monday, April 20/23 Pulmonary function Re-breathing data for 3 groups

Homework/Lab Assignments

Ground rules and tips for the homework assignments (applies also to lab reports and the term paper).

Link to MATLAB information

The Assignments

Homework Assignment #1 Simulation of cardiac action potentials, due Tuesday, February 13
- Instructions for the assignment.
- Background information in PDF format.
- Zipped archive file for the Matlab code for Homework Assignment.
- Links to the original Hodgkin and Huxley paper and also a tribute to this research.

Semester Project

There is a term project (PDF) for the course that is due at the end of the semester (see deadline list , above). Note that the proposal/outline for the project is due beforehand. Please feel free to contact RSM for questions as you develop the outline and ideas for the paper.

Tips for the term paper
Sample outline #1. This is a nice example of a well detailed outline for the paper.
Sample outline #2. Another example of an outline, this one more compact but still covering the essential elements.

MATLAB Info

General information
Shibaji's MATLAB presentation (from 2005)
Accompanying m-files:
- myfile.m the main program file.
- chkevod.m
- getrslt.m
- plotter.m

Additional background information.

Previous Year's Notes

Note: these are pdf files from the previous year's edition of the course. They will change at least slightly from year to year so use the current versions (above) if you are taking the class!

Last modified: Thu Apr 26 17:13:11 MDT 2012

Lab #	Date	Topic/Description	Links/Data/Comments
1	Friday, Jan 14	Dissection of bovine heart/lungs (also in pdf version )	Comments on lab reports (pdf)
2	Friday/Monday, Feb 10/13	Regulation of heart rate and contraction (frog)	Comments on lab reports (pdf)
3	Friday/Monday, March 24/27	ECG lab	BSPM data
4	Wednesday/Friday, March 7/9 in HSEB 3100B	Simulation Lab, ECG simulation
5	Friday/Monday, April 6/9	Exercise and blood pressure
6	Friday/Monday, April 20/23	Pulmonary function	Re-breathing data for 3 groups

Bioengineering/Physiology 6000: System Physiology I: Cardiovascular, Respiratory, and Renal Systems Spring of 2012 Edition Note: this class makes heavy use of Canvas for submission of all assignments.