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FRTF01 Physiological Models and Computation FRTF01 Fysiologiska modeller och Beräkningar

FRTF01 Syllabus

This course is scheduled for the second quarter of the fall (Lp2) with a course syllabus.




News

17/11: Added som additional material for the Nyquist Criterium in the exercises.

15/11: Each prorject group have recived a supervisor. You should recieve a mail from your supervisor shortly. There is also now some resources if you want to try writing a report in LaTeX.

15/11: Added a new exerice (current 6.2) and some matrial on static gain at the end of chapter 5. It is generally a good idea to redownload the exercies as there might be some minor fixes due to feedback during the exercise sessions.

6/11: Sign-up list for labs added (link). Deadlines for third and forth handin have been extended so that students that dont pass the labs have time to complete tha handin. This should not be a problem if you come prepared.

6/11: Sign-up list for projects added.

Personnel & Instructors

The lectures are given by Rolf Johansson (Rolf.Johansson@control.lth.se, tel. 046-222 87 91, office M:5145; Office hour M16.00-17.00).

Carolina Lidström (carolina.lidstrom@control.lth.se, tel. 046-222 15 70) will supervise some of the projects. 

Problem solving sessions are given by:

Martin Heyden (tel. 046-222 4287, Martin.Heyden@control.lth.se, Office hour M 11-12 (except Nov 13), F 13-14 M:2160A)

Course Plan

Lectures

Lectures will be held in M:E, M:B.

Week

Date

Nr

Contents

44

31/10

1

Introduction. Physiological Complexity. 

 

2/11

2

Modeling in Physiology.

 45

7/11

3

Control in Physiological Systems.

 

9/11

4

Physiological Feedback, Adaptation, Learning.

 46

14/11

5

Pharmacokinetics & Tracers.

 

16/11

6

Metabolism, Glucose & Insulin Dynamics.  

 47

21/11

7

Biomechanics: Muscle Models, Postural Control, Gait.

 

23/11

8

Electrophysiology. The Hodgkin-Huxley Model. 

 48

30/11

9

Blood Flow Control, Temperature Control, Acid-Base Control.

49

5/12

 

Project Presentation Seminar

 50 11/12 10 System Identification. Measurements & Data-based modeling.

 

Exercises

Problem solving sessions are given on alternating days each week in M:Ina3-4. The exercises are available for download HERE.

Week

Date

Nr

Contents

44

31/10

E1

Introduction to computation and simulation in Matlab

 

2/11

E2

Biochemical Reactions: equilibrium, steady state and control.

 45

7/11

E3

Compartment models and simulation in Simulink.

      

9/11

E4

Linear systems and linearization

 46

14/11

E5

Stability in linear systems and Pharmacokinetics Example code exercise 5.7

 

16/11

E6

Feedback in linear systems and Tracer Kinetics

 47

21/11

E7

Metabolism, and Glucose & Insulin Kinetics. insulin_data.mat

 

23/11

E8

State feedback, biomechanics and posture control.

 48

28/11

E9

The Hodgkin-Huxley Model.

 

30/11

E10

Blood Flow Control and heart-rate dynamics.

 49

12/12

E11

State etsimation & System Identification. Metanol_data.mat


Home-Work Assignments

There are four compulsory home-work assignments throughout the course. You may undertake the assigments in groups of two. Your solutions should be:

  • clearly written using a word processor (Microsoft Word, Open Office, Latex, etc). Save and send in the assignment as a .pdf-file.
  • if you include figures, make sure they are of good quality and that you state the source. If you include plots, make sure that the axes are labeled. Below each figure or plot you should add a description.
  • handed in according to the deadlines by e-mail to FRTF01@list.control.lth.se.

 

The third and fourth handin can be completed as labs if you want to. Sign up here. The automatic control lab is opposite to the entrance to INA. If you want to change your signup, email Martin.

 

Solutions not fulfilling these requirements will not be considered. The assigments are due according to the following:

Week

Date

Nr

Contents

46

16/11

HW1

EnzymeKinetics. Files: HW1

47

23/11

HW2

PupilReflexDynamics. Files: HW2

48

4/12

HW3

Glucose & InsulinDynamics. Files: HW3

49

11/12

HW4

The Hodgkin-HuxleyModel. Files: HW4

 

Projects

Choose a model of a physiological system from the project list (see link below) or from the literature according to your interest. Perform mathematical analysis of the model and evaluate its properties with a comparison of published experimental data, if possible. Otherwise you should make a qualitative assasment of the properties of your model. Draw conclusions on the relationships among structure and function. Perform a critical analysis of the model quality and the accuracy.

For topics and information about the projects, CLICK HERE. 

The groups and supervisors are finalized, click here to see them.

The FRTF01 course project can be done individually or in groups of two students (three students in rare cases, for example if you are unable to find a group otherwise). To make sure that two groups are not doing identical projects, you will have to register your project by filling in this form (Deadline passed) . Also check that your intended project is not already registered by another group (by checking the answers, deadline passed). Contact the TA if you are unsure about if your project is unique enough. If you need help finding a group, you can fill in the form and write in project title that you need a group.

Once you have chosen a project, make a short project proposal with a work plan and send it to FRTF01@list.control.lth.se for approval by November 13. You will be assigned a supervisor. Make sure you set an appointment with him/her to initiate your project. A brief project report on scientific format should be written and sent to FRTF01@list.control.lth.se no later than December 11. A short presentation (5 min) should be given on the project seminar December 5  in M:B. We expect the project to take less than one week of work.

The examination of the FRTF01 projects will result in grades passed or passed with distinction. If your project grade is passed with distinction, the final grade of the course will be raised by one unit. If your exam grade is 3, then your final grade will be 4. If your exam grade is 4, then your final grade will be 5. The qualification for the grade with distinction is a well done project with some contribution beyond the minimum-effort project. Discuss such options with your advisor.

Deadlines: 

To decide upon project and group: 13/11

Project seminar: 5/12

To hand in final report: 11/12

Project Groups and assigned supervisors

Please contact your supervisor as soon as possible to initiate the project. Contact information is given under Personnel and Instructors above.

 

Examination

The examination will be of a problem solving type. It is to be held on Monday, Jan 8, 08.00–13.00 in MA:9E, MA:9F. You may use the lecture slides, any books (without relevant exercises with solutions), standard mathematical tables, “Formelsamling i reglerteknik” and calculator at the examination.

Exam 2017-01-11

Exam, 2016-01-13

Other

Some material that helps you prepare for the course.

A Matlab tutorial - Control Toolbox

Modeling basics in Simulink

Download Matlab as LTH-student

Collection of common results and formulae in control (Sw. Formelsamling i reglerteknik)