Course Detail
Course Description
| Course | Code | Semester | T+P (Hour) | Credit | ECTS |
|---|---|---|---|---|---|
| BIOMEDICAL MODELING and SIMULATION | - | Fall Semester | 3+0 | 3 | 6 |
| Course Program |
| Prerequisites Courses | |
| Recommended Elective Courses |
| Language of Course | English |
| Course Level | First Cycle (Bachelor's Degree) |
| Course Type | Elective |
| Course Coordinator | Assist.Prof. Kevser Banu KÖSE |
| Name of Lecturer(s) | Assist.Prof. Kevser Banu KÖSE |
| Assistant(s) | |
| Aim | The aim is to introduce and apply numerical methods of modeling and simulations in biomedical systems. The course aims at giving the main methods of applied physics applications of biomedical dynamic systems. The focus is to study methods and applications that are of relevance in biomedical engineering within diagnostic and therapeutic applications as well as for physiological processes and virtual tests. |
| Course Content | This course contains; Introduction and general concepts, Overview of the course and, the general insight of modeling and simulation of complex systems,Analogies in Biosystem Modeling and Definition of Multi-Physics Definitions,Partial Differential Equations for Dynamic Systems, Numerical Analysis,Medical Image Analysis, Medikal Görüntü Verisi ile 3B Segmentasyon, Bilgisayar Destekli Tasarım Araçları,ANSYS Design Modeler, ANSYS Meshing Applications,Computational Fluid Dynamics / Nümerical Analysis of Blood Flow,Vascular Device Design, Virtual Operation, and Flow Analysis,Computational Modeling of Musculoskeletal System,Surgical Planning and Simulation, Patient-Specific Implant and Graft Design and Virtual Tests,Applications on Hemodynamic Models,Applications on Injury Mechanism Models and Comparisons with Data Visualisations,Virtual Device Test Applications,Student Presentations,Student Presentations. |
| Dersin Öğrenme Kazanımları | Teaching Methods | Assessment Methods |
| Visualize biomedical device design and virtual performance tests with numerical methods. | 10, 12, 16, 3 | F |
| Outline the concepts used in the modeling of complex biomedical systems. | 9 | F |
| Translate a dynamic physiological phenomenon into a mathematical set of equations. | 19, 3 | F |
| Defines how numerical solutions can be applied to mathematical models that cannot be resolved analytically and the software tools for them. | 10, 12, 19, 21, 3 | |
| Convert medical image data into STL objects and design three-dimensional objects with computer-aided software. | 10, 12, 16, 19, 3, 9 | F |
| Can perform fluid dynamics and structural mechanics analysis in biological systems with the finite element method. Simulate three-dimensional differential equations and boundary value problems with finite element analysis. | 10, 12, 14, 16, 18, 19, 2, 3, 4, 6 | D, E, F, H |
| Teaching Methods: | 10: Discussion Method, 12: Problem Solving Method, 14: Self Study Method, 16: Question - Answer Technique, 18: Micro Teaching Technique, 19: Brainstorming Technique, 2: Project Based Learning Model, 21: Simulation Technique, 3: Problem Baded Learning Model, 4: Inquiry-Based Learning, 6: Experiential Learning, 9: Lecture Method |
| Assessment Methods: | D: Oral Exam, E: Homework, F: Project Task, H: Performance Task |
Course Outline
| Order | Subjects | Preliminary Work |
|---|---|---|
| 1 | Introduction and general concepts, Overview of the course and, the general insight of modeling and simulation of complex systems | General information is obtained about biomedical modeling applications. |
| 2 | Analogies in Biosystem Modeling and Definition of Multi-Physics Definitions | Examples of multi-physics simulation are investigated |
| 3 | Partial Differential Equations for Dynamic Systems, Numerical Analysis | Review of the knowledge of differantial equations |
| 4 | Medical Image Analysis, Medikal Görüntü Verisi ile 3B Segmentasyon, Bilgisayar Destekli Tasarım Araçları | Students should have 3D Slicer, FreeCAD, MeshMixer and ANSYS Aim software ready on their devices before the lesson. |
| 5 | ANSYS Design Modeler, ANSYS Meshing Applications | Installing ANSYS Student sowware to PC. |
| 6 | Computational Fluid Dynamics / Nümerical Analysis of Blood Flow | Review the last lecture. |
| 7 | Vascular Device Design, Virtual Operation, and Flow Analysis | Review the last lecture. |
| 8 | Computational Modeling of Musculoskeletal System | Review biomechanics course notes |
| 9 | Surgical Planning and Simulation, Patient-Specific Implant and Graft Design and Virtual Tests | Literature search on virtual surgery |
| 10 | Applications on Hemodynamic Models | Literature search on hemodynamics simulations |
| 11 | Applications on Injury Mechanism Models and Comparisons with Data Visualisations | |
| 12 | Virtual Device Test Applications | Students should create a Simscale account and access the software on the web. |
| 13 | Student Presentations | Review of the past presentations |
| 14 | Student Presentations | Review of the past presentations |
| Resources |
| 1- Finite Element Analysis for Biomedical Engineering Applications - 2019 -CRC Press, Z. C. Yang , 2- Numerical Methods in Biomedical Engineering - Stanley Dunn, Alkis Constantinides, Prabhas V. Moghe -Academic Press Elsevier, 3- Quantitative Human Physiology: An Introduction (Biomedical Engineering) 2nd Edition - Joseph J Feher -Academic Press Elsevier |
| Software: ANSYS, Slicer3D, Inobitec, Geomagic, FreeCAD, Simscale, Autodesk MeshMixer, Materialise Mimics Student Edition |
Course Contribution to Program Qualifications
| Course Contribution to Program Qualifications | |||||||
| No | Program Qualification | Contribution Level | |||||
| 1 | 2 | 3 | 4 | 5 | |||
| 1 | An ability to apply knowledge of mathematics, science, and engineering | X | |||||
| 2 | An ability to identify, formulate, and solve engineering problems | X | |||||
| 3 | An ability to design a system, component, or process to meet desired needs within realistic constraints such as economic, environmental, social, political, ethical, health and safety, manufacturability, and sustainability | X | |||||
| 4 | An ability to use the techniques, skills, and modern engineering tools necessary for engineering practice | X | |||||
| 5 | An ability to use the techniques, skills, and modern engineering tools necessary for engineering practice | X | |||||
| 6 | An ability to function on multidisciplinary teams | X | |||||
| 7 | An ability to communicate effectively | X | |||||
| 8 | A recognition of the need for, and an ability to engage in life-long learning | X | |||||
| 9 | An understanding of professional and ethical responsibility | X | |||||
| 10 | A knowledge of contemporary issues | X | |||||
| 11 | The broad education necessary to understand the impact of engineering solutions in a global, economic, environmental, and societal context | ||||||
| 12 | Capability to apply and decide on engineering principals while understanding and rehabilitating the human body | X | |||||
Assessment Methods
| Contribution Level | Absolute Evaluation | |
| Rate of Midterm Exam to Success | 30 | |
| Rate of Final Exam to Success | 70 | |
| Total | 100 | |
| ECTS / Workload Table | ||||||
| Activities | Number of | Duration(Hour) | Total Workload(Hour) | |||
| Course Hours | 14 | 3 | 42 | |||
| Guided Problem Solving | 4 | 1 | 4 | |||
| Resolution of Homework Problems and Submission as a Report | 4 | 1 | 4 | |||
| Term Project | 3 | 1 | 3 | |||
| Presentation of Project / Seminar | 2 | 30 | 60 | |||
| Quiz | 2 | 3 | 6 | |||
| Midterm Exam | 1 | 30 | 30 | |||
| General Exam | 1 | 30 | 30 | |||
| Performance Task, Maintenance Plan | 1 | 1 | 1 | |||
| Total Workload(Hour) | 180 | |||||
| Dersin AKTS Kredisi = Toplam İş Yükü (Saat)/30*=(180/30) | 6 | |||||
| ECTS of the course: 30 hours of work is counted as 1 ECTS credit. | ||||||
Detail Informations of the Course
Course Description
| Course | Code | Semester | T+P (Hour) | Credit | ECTS |
|---|---|---|---|---|---|
| BIOMEDICAL MODELING and SIMULATION | - | Fall Semester | 3+0 | 3 | 6 |
| Course Program |
| Prerequisites Courses | |
| Recommended Elective Courses |
| Language of Course | English |
| Course Level | First Cycle (Bachelor's Degree) |
| Course Type | Elective |
| Course Coordinator | Assist.Prof. Kevser Banu KÖSE |
| Name of Lecturer(s) | Assist.Prof. Kevser Banu KÖSE |
| Assistant(s) | |
| Aim | The aim is to introduce and apply numerical methods of modeling and simulations in biomedical systems. The course aims at giving the main methods of applied physics applications of biomedical dynamic systems. The focus is to study methods and applications that are of relevance in biomedical engineering within diagnostic and therapeutic applications as well as for physiological processes and virtual tests. |
| Course Content | This course contains; Introduction and general concepts, Overview of the course and, the general insight of modeling and simulation of complex systems,Analogies in Biosystem Modeling and Definition of Multi-Physics Definitions,Partial Differential Equations for Dynamic Systems, Numerical Analysis,Medical Image Analysis, Medikal Görüntü Verisi ile 3B Segmentasyon, Bilgisayar Destekli Tasarım Araçları,ANSYS Design Modeler, ANSYS Meshing Applications,Computational Fluid Dynamics / Nümerical Analysis of Blood Flow,Vascular Device Design, Virtual Operation, and Flow Analysis,Computational Modeling of Musculoskeletal System,Surgical Planning and Simulation, Patient-Specific Implant and Graft Design and Virtual Tests,Applications on Hemodynamic Models,Applications on Injury Mechanism Models and Comparisons with Data Visualisations,Virtual Device Test Applications,Student Presentations,Student Presentations. |
| Dersin Öğrenme Kazanımları | Teaching Methods | Assessment Methods |
| Visualize biomedical device design and virtual performance tests with numerical methods. | 10, 12, 16, 3 | F |
| Outline the concepts used in the modeling of complex biomedical systems. | 9 | F |
| Translate a dynamic physiological phenomenon into a mathematical set of equations. | 19, 3 | F |
| Defines how numerical solutions can be applied to mathematical models that cannot be resolved analytically and the software tools for them. | 10, 12, 19, 21, 3 | |
| Convert medical image data into STL objects and design three-dimensional objects with computer-aided software. | 10, 12, 16, 19, 3, 9 | F |
| Can perform fluid dynamics and structural mechanics analysis in biological systems with the finite element method. Simulate three-dimensional differential equations and boundary value problems with finite element analysis. | 10, 12, 14, 16, 18, 19, 2, 3, 4, 6 | D, E, F, H |
| Teaching Methods: | 10: Discussion Method, 12: Problem Solving Method, 14: Self Study Method, 16: Question - Answer Technique, 18: Micro Teaching Technique, 19: Brainstorming Technique, 2: Project Based Learning Model, 21: Simulation Technique, 3: Problem Baded Learning Model, 4: Inquiry-Based Learning, 6: Experiential Learning, 9: Lecture Method |
| Assessment Methods: | D: Oral Exam, E: Homework, F: Project Task, H: Performance Task |
Course Outline
| Order | Subjects | Preliminary Work |
|---|---|---|
| 1 | Introduction and general concepts, Overview of the course and, the general insight of modeling and simulation of complex systems | General information is obtained about biomedical modeling applications. |
| 2 | Analogies in Biosystem Modeling and Definition of Multi-Physics Definitions | Examples of multi-physics simulation are investigated |
| 3 | Partial Differential Equations for Dynamic Systems, Numerical Analysis | Review of the knowledge of differantial equations |
| 4 | Medical Image Analysis, Medikal Görüntü Verisi ile 3B Segmentasyon, Bilgisayar Destekli Tasarım Araçları | Students should have 3D Slicer, FreeCAD, MeshMixer and ANSYS Aim software ready on their devices before the lesson. |
| 5 | ANSYS Design Modeler, ANSYS Meshing Applications | Installing ANSYS Student sowware to PC. |
| 6 | Computational Fluid Dynamics / Nümerical Analysis of Blood Flow | Review the last lecture. |
| 7 | Vascular Device Design, Virtual Operation, and Flow Analysis | Review the last lecture. |
| 8 | Computational Modeling of Musculoskeletal System | Review biomechanics course notes |
| 9 | Surgical Planning and Simulation, Patient-Specific Implant and Graft Design and Virtual Tests | Literature search on virtual surgery |
| 10 | Applications on Hemodynamic Models | Literature search on hemodynamics simulations |
| 11 | Applications on Injury Mechanism Models and Comparisons with Data Visualisations | |
| 12 | Virtual Device Test Applications | Students should create a Simscale account and access the software on the web. |
| 13 | Student Presentations | Review of the past presentations |
| 14 | Student Presentations | Review of the past presentations |
| Resources |
| 1- Finite Element Analysis for Biomedical Engineering Applications - 2019 -CRC Press, Z. C. Yang , 2- Numerical Methods in Biomedical Engineering - Stanley Dunn, Alkis Constantinides, Prabhas V. Moghe -Academic Press Elsevier, 3- Quantitative Human Physiology: An Introduction (Biomedical Engineering) 2nd Edition - Joseph J Feher -Academic Press Elsevier |
| Software: ANSYS, Slicer3D, Inobitec, Geomagic, FreeCAD, Simscale, Autodesk MeshMixer, Materialise Mimics Student Edition |
Course Contribution to Program Qualifications
| Course Contribution to Program Qualifications | |||||||
| No | Program Qualification | Contribution Level | |||||
| 1 | 2 | 3 | 4 | 5 | |||
| 1 | An ability to apply knowledge of mathematics, science, and engineering | X | |||||
| 2 | An ability to identify, formulate, and solve engineering problems | X | |||||
| 3 | An ability to design a system, component, or process to meet desired needs within realistic constraints such as economic, environmental, social, political, ethical, health and safety, manufacturability, and sustainability | X | |||||
| 4 | An ability to use the techniques, skills, and modern engineering tools necessary for engineering practice | X | |||||
| 5 | An ability to use the techniques, skills, and modern engineering tools necessary for engineering practice | X | |||||
| 6 | An ability to function on multidisciplinary teams | X | |||||
| 7 | An ability to communicate effectively | X | |||||
| 8 | A recognition of the need for, and an ability to engage in life-long learning | X | |||||
| 9 | An understanding of professional and ethical responsibility | X | |||||
| 10 | A knowledge of contemporary issues | X | |||||
| 11 | The broad education necessary to understand the impact of engineering solutions in a global, economic, environmental, and societal context | ||||||
| 12 | Capability to apply and decide on engineering principals while understanding and rehabilitating the human body | X | |||||
Assessment Methods
| Contribution Level | Absolute Evaluation | |
| Rate of Midterm Exam to Success | 30 | |
| Rate of Final Exam to Success | 70 | |
| Total | 100 | |