Course Name | Molecular Biophysics |
Code | Semester | Theory (hour/week) | Application/Lab (hour/week) | Local Credits | ECTS |
---|---|---|---|---|---|
BME 315 | Fall/Spring | 3 | 0 | 3 | 5 |
Prerequisites |
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Course Language | English | ||||||||
Course Type | Elective | ||||||||
Course Level | First Cycle | ||||||||
Mode of Delivery | - | ||||||||
Teaching Methods and Techniques of the Course | |||||||||
Course Coordinator | |||||||||
Course Lecturer(s) | |||||||||
Assistant(s) | - |
Course Objectives | The aim of this course to discuss the theories and applications of biophysics in the field of nanobiomedicine and biomedicine. Biophysics as a promising interdisciplinary field combines the laws and concepts of physics, biology, chemistry, biochemistry, medicine and engineering. This course offers a comprehensive introduction to the biological systems at the molecular and subcellular level with an emphasis on the electrical and dynamical behavior. Fundamental theories in biomedicine and applications with recent examples are provided as well. |
Learning Outcomes | The students who succeeded in this course;
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Course Description | This course covers binding interactions and forces determining the biomolecules/biopolymers, structural-functional and dynamical features of biomolecules (nucleic acids, proteins, lipids etc.), enzyme mechanisms, cell membrane dynamics, membrane proteins, transport, physics of neurons, thermodynamics, bioenergetics, radiation processes, biomedical spectroscopy, infrared spectroscopy and other spectroscopic techniques with novel approaches in nanobiomedicine and biomedicine. |
Related Sustainable Development Goals | |
| Core Courses | |
Major Area Courses | X | |
Supportive Courses | ||
Media and Managment Skills Courses | ||
Transferable Skill Courses |
Week | Subjects | Required Materials |
1 | Bindings, interactions and forces determining the biomolecules/biopolymers | Meyer B. Jackson, ‘Molecular and Cellular Biophysics’, Cambridge Univ. Press 2010, Chapter 2 |
2 | Cellular compartments | RH. Abeles, PA. Frey and William P. Jencks; Biochemistry; Jones & Bartlett Learning; 1st edition Ch.1 |
3 | Structural and functional properties of biomolecules (nucleic acids, proteins, lipids) | RH. Abeles, PA. Frey and William P. Jencks; Biochemistry; Jones & Bartlett Learning; 1st edition Chapters 7,12,19 |
4 | Cell membrane dynamics and membrane proteins, channels and carriers, active transport | Philip Nelson, Biological Physics, 2004, Published by W. H. Freeman, Ch.2 |
5 | Enzyme mechanisms, Enzyme reactions and kinetics | Meyer B. Jackson, ‘Molecular and Cellular Biophysics’, Cambridge Univ. Press 2010, Chapter 10 |
6 | Thermodynamics, bioenergetics, ionization of biological molecules | Philip Nelson, Biological Physics, 2004, Published by W. H. Freeman, Ch.6 |
7 | Ion permeation and membrane potentials, physics of neurons, nerve signals, action potential | Meyer B. Jackson, ‘Molecular and Cellular Biophysics’, Cambridge Univ. Press 2010, Chapter 13 |
8 | Midterm | |
9 | Interaction of IR radiation with biomolecules, vibrational modes; Infrared Spectroscopy in Biomedicine | PW Atkins and J. Paula, Physical Chemistry for the Life Sciences, Oxford Univ. Press, 2011 Chapter 12 |
10 | Radiation processes (emission, scattering, absorption) and properties of light; UV-Vis Spectroscopy, CD Spectroscopy, Fluorescence Spectroscopy with their applications in medicine (Part I) | PW Atkins and J. Paula, Physical Chemistry for the Life Sciences, Oxford Univ. Press, 2006 Chapter 12 |
11 | Radiation processes (emission, scattering, absorption) and properties of light; UV-Vis Spectroscopy, CD Spectroscopy, Fluorescence Spectroscopy with their applications in medicine (Part II) | PW Atkins and J. Paula, Physical Chemistry for the Life Sciences, Oxford Univ. Press, 2006 Chapter 12 |
12 | X-ray crystallography, diffraction; Drug/ligand interactions; Molecular Docking | Relevant literatures |
13 | Nanobiomedicine, Drug delivery, Characterization | Relevant literatures |
14 | Case studies on application of biomedical and biophysical techniques to biological specimens from recent literatures | Relevant literatures |
15 | Semester Review | |
16 | Final Exam |
Course Notes/Textbooks | 1-) Meyer B. Jackson, ‘Molecular and Cellular Biophysics’, Cambridge Univ. Press 2010, ISBN 10: 052162441X ISBN 13: 9780521624411 2-) Philip Nelson, Biological Physics, 2004, Published by W. H. Freeman, ISBN-13: 978-0716798972 ISBN-10: 0716798972 3-) PW Atkins and J. Paula, Physical Chemistry for the Life Sciences, Oxford Univ. Press, 2006, ISBN-13: 978-1-4292-3114-5 ISBN-10: 1-4292-3114-9 4-) RH. Abeles, PA. Frey and William P. Jencks; Biochemistry; Jones & Bartlett Learning; 1st edition, ISBN-13: 978-0867202120 ISBN-10: 0867202122 5-) PATRICK F. DILLON, Biophysics : a physiological approach, 2012, ISBN 978-1-107-00144-2 (hardback) – ISBN 978-0-521-17216-5 (pbk.), Cambridge University Press |
Suggested Readings/Materials |
Semester Activities | Number | Weigthing |
Participation | 1 | 10 |
Laboratory / Application | ||
Field Work | ||
Quizzes / Studio Critiques | ||
Portfolio | ||
Homework / Assignments | 1 | 20 |
Presentation / Jury | ||
Project | ||
Seminar / Workshop | ||
Oral Exam | ||
Midterm | 1 | 35 |
Final Exam | 1 | 35 |
Total |
Weighting of Semester Activities on the Final Grade | 5 | 70 |
Weighting of End-of-Semester Activities on the Final Grade | 1 | 30 |
Total |
Semester Activities | Number | Duration (Hours) | Workload |
---|---|---|---|
Course Hours (Including exam week: 16 x total hours) | 16 | 2 | 32 |
Laboratory / Application Hours (Including exam week: 16 x total hours) | 16 | 2 | |
Study Hours Out of Class | 16 | 3 | 48 |
Field Work | |||
Quizzes / Studio Critiques | 6 | ||
Portfolio | |||
Homework / Assignments | 1 | ||
Presentation / Jury | |||
Project | |||
Seminar / Workshop | |||
Oral Exam | |||
Midterms | 1 | 10 | |
Final Exams | 1 | 16 | |
Total | 138 |
# | Program Competencies/Outcomes | * Contribution Level | ||||
1 | 2 | 3 | 4 | 5 | ||
1 | To have adequate knowledge in Mathematics, Science and Biomedical Engineering; to be able to use theoretical and applied information in these areas on complex engineering problems. | |||||
2 | To be able to identify, define, formulate, and solve complex Biomedical Engineering problems; to be able to select and apply proper analysis and modeling methods for this purpose. | X | ||||
3 | To be able to design a complex system, process, device or product under realistic constraints and conditions, in such a way as to meet the requirements; to be able to apply modern design methods for this purpose. | X | ||||
4 | To be able to devise, select, and use modern techniques and tools needed for analysis and solution of complex problems in Biomedical Engineering applications. | X | ||||
5 | To be able to design and conduct experiments, gather data, analyze and interpret results for investigating complex engineering problems or Biomedical Engineering research topics. | X | ||||
6 | To be able to work efficiently in Biomedical Engineering disciplinary and multi-disciplinary teams; to be able to work individually. | X | ||||
7 | To be able to communicate effectively in Turkish, both orally and in writing; to be able to author and comprehend written reports, to be able to prepare design and implementation reports, to present effectively, to be able to give and receive clear and comprehensible instructions. | |||||
8 | To have knowledge about global and social impact of Biomedical Engineering practices on health, environment, and safety; to have knowledge about contemporary issues as they pertain to engineering; to be aware of the legal ramifications of engineering solutions. | X | ||||
9 | To be aware of ethical behavior, professional and ethical responsibility; to have knowledge about standards utilized in engineering applications. | |||||
10 | To have knowledge about industrial practices such as project management, risk management, and change management; to have awareness of entrepreneurship and innovation; to have knowledge about sustainable development. | X | ||||
11 | To be able to collect data in the area of Biomedical Engineering, and to be able to communicate with colleagues in a foreign language. | |||||
12 | To be able to speak a second foreign language at a medium level of fluency efficiently. | |||||
13 | To recognize the need for lifelong learning; to be able to access information, to be able to stay current with developments in science and technology; to be able to relate the knowledge accumulated throughout the human history to Biomedical Engineering. |
*1 Lowest, 2 Low, 3 Average, 4 High, 5 Highest