Advanced Physiological Modelling

Course content

The course aims to provide overview of current research topics in mathematical modeling. The course will give students the opportunity to develop mathematical and computer modeling skills.

The course entails two parts: lectures followed by an associated problem sessions and research projects in groups. In the lectures, the students are familiarized with advanced tools of physiological modeling including statistical, machine learning, and mechanism-based modelling. Research projects lasts from the first day until the exam and is carried out in groups under the supervision of a researcher. The research projects are the basis for a written report that the exam is based on.

The course occupies the entire Wednesday with lectures from 8-12 and group work from 12-17.

To complete the course, moderate experience with programming and general knowledge of human physiology are prerequisites.

Education

MSc Programme of Biomedical Engineering - Restricted elective in the Technological Specialization

MSc Quantitative Biology and Disease Modelling - Restricted elective in the Technological Specialization

Open to other students with adequate prerequisites

Learning outcome

After participating in the course, the student must demonstrate the following abilities at a sufficient level:

Knowledge

Understanding of mathematical/physics concepts (dynamical systems, oscillation theory, network theory, statistics, survival analysis, machine learning);
Understanding of computational algorithms behind Matlab/Python/R scripts related to biosimulations;
Understanding of topology and dynamics of biological networks and their relevance to normal and pathological conditions;
Understanding of the assumptions and simplifications are needed to build a model;
Understanding of underlying signaling mechanisms and corresponding control parameters in a model related to a certain disease.

Skills

To review scientific literature on physiological modeling and related data analysis, critically assess the use of methods and obtained results;
To perform theoretical and computational analysis of dynamical patterns of physiological models and reveal parameters responsible for pathological conditions;
To optimize/develop computation algorithms to perform biosimulations;
To convey a physiological problem solving into a report and a Power Point presentation.

Competence

To formulate data-driven and mechanism-based models and choose appropriate computational methods to study them;
To interpret statistical and dynamical features of biomedical systems in term of biology and mathematics;
To integrate fundamental knowledge from physics, mathematics,and biology to provide better understanding of regulatory mechanisms at different levels of physiological organization.

Teaching and learning methods

Lectures, class/home assignments, project work

Literature

Lecture notes and scientific papers

Remarks

Please, note that this is 10 ECTS course (2.5 ECTS is for the course certificate + 7.5 ECTS for the examination).

Feedback form

Oral

Peer feedback (Students give each other feedback)

Exam 1 (Course certificate SMTK20001E)

ECTS: 2,5 ECTS
Type of assessment: Requirement to attend classes
Type of assessment details: Satisfactory completion of all written and oral assignments through the course and approval of the final written report.
Aid: All aids allowed except Generative AI
Marking scale: passed/not passed
Censorship form: No external censorship

Criteria for exam assessment

To obtain the course certificate the student must be able

Knowledge

To understand underlying mathematical/physics concepts;
To understand computational algorithms used for modeling;
To understand biological background of the models.

Skills

To discuss modeling approaches depending on the purpose of study;
To reproduce, modify and simulate models from scientific literature;
To discuss reproducibility and comparability of relevant computational models;
To apply mathematical/physical concept to a specific biomedical problem;
To formulate a model and discuss its possible simplification/extension and dynamics;
To evelop algorithms to perform simulations;
to improve scientific writings in English language.

Exam 2 (Exam in Advanced Physiological ModellingSMTK20002E)

ECTS: 7,5 ECTS
Type of assessment: Written assignment

Oral examination, 30 min.
Type of assessment details: Oral exam includes a presentation of the project on the basis of the written report and discussion of biological, mathematical, and computational aspects of the project.
Examination prerequisites: Achieved course attestation by handing-in of project assignment and assessment/criticism of the received assignment.
Aid: No aids allowed
Marking scale: 7-point grading scale
Censorship form: No external censorship
One internal examiner
Exam period: https://healthsciences.ku.dk/education/for-students/exam-schedule/biomedical-engineering/
Re-exam: https://healthsciences.ku.dk/education/for-students/exam-schedule/biomedical-engineering/

Criteria for exam assessment

In order to obtain the grade 12, the student must demonstrate the following abilities at a sufficient level:

Knowledge

Understanding of physiology and regulatory mechanisms related to normal and pathological conditions;
Understanding of mathematical/physics concepts underlying modeling approaches;
Understanding of computational algorithms behind the scripts related to biosimulations;
Understanding of assumptions and simplifications needed to build a reliable model;
Understanding of dynamical/statistical features of the model and their relevance to physiological states.

Skills

To review scientific literature on physiological modeling and related data analysis; critically assess the use of methods and obtained results;
To discuss reproducibility and comparability of relevant computational models and approaches;
To perform theoretical and computational analysis of dynamical patterns of physiological models and reveal parameters responsible for pathological conditions;
To optimize/develop computation algorithms to perform biosimulations;
To convey results into a scientifically written report and a Power Point presentation.

Course type

Single subject courses (day)

Workload

Category
Hours
Lectures
24
Preparation
170
Exercises
24
Project work
56
Exam
0,5
English
274,5

Kursusinformation

Language: English
Course number: SMTK20001U
ECTS: See exam description
Programme level: Full Degree Master
Duration: 1 semester
Placement: Autumn
Schedulegroup: See Syllabus
Capacity: 60 participants
Studyboard: Study board from DTU

Contracting department

Department of Biomedical Sciences

Contracting faculty

Faculty of Health and Medical Sciences

Course Coordinator

Olga Sosnovtseva (4-716e69634275777066306d7730666d)

If you need help:
Questions about teaching or team setting for your KU-courses, please contact: Undervisning@sund.ku.dk

Questions about exams for your KU-courses, please contact:
eksamen@sund.ku.dk

Questions about study planning for your KU courses, please contact:
vejledning@sund.ku.dk

Saved on the 20-03-2025

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Advanced Physiological Modelling

Course content

Criteria for exam assessment

Criteria for exam assessment

Kursusinformation

Contracting department

Contracting faculty

Course Coordinator

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