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      FACULTY OF ENGINEERING

      Department of Biomedical Engineering

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      GBE 340 | Course Introduction and Application Information

      Course Name
      Cell Death Mechanisms
      Code
      Semester
      Theory
      (hour/week)
      Application/Lab
      (hour/week)
      Local Credits
      ECTS
      GBE 340
      Fall/Spring
      3
      0
      3
      5

      Prerequisites
      None
      Course Language
      English
      Course Type
      Elective
      Course Level
      First Cycle
      Mode of Delivery -
      Teaching Methods and Techniques of the Course Discussion
      Group Work
      Q&A
      Lecture / Presentation
      National Occupation Classification -
      Course Coordinator
      • Prof. Dr. Zeynep Fırtına Karagonlar
      Course Lecturer(s)
      • Dr. Öğr. Üyesi Gizem AYNA DURAN
      Assistant(s) -
      Course Objectives This course will focus on understanding the basics of conventional as well as unconventional cell death mechanisms and their roles in development, physiology and pathology. It will cover a broad range of topics in cell death field including apoptosis, autophagy, necrosis, necroptosis, lysosome-dependent cell death, entosis, anoikis, ferroptosis, pyroptosis, anastasis, mitotic death and immunogenic cell death.
      Learning Outcomes
      #
      Content
      PC Sub
      * Contribution Level
      1
      2
      3
      4
      5
      1Be able to explain the basic principles of cell death mechanisms
      2Be able to apply methods used to analyze cell death mechanisms
      3Will be able to evaluate scientific studies in this field in terms of design, hypothesis, and value, and will be able to conduct literature research on a specific subject and share their knowledge about that subject in written and oral form.
      4Explain the interactions between different cell death mechanisms
      5Be able to identify how irregularities in cell death mechanisms can lead to the formation of pathological conditions such as cancer and neurodegenerative diseases.
      Course Description This course covers the description of molecular mechanisms of cell death including apoptosis, autophagy, necrosis, necroptosis, lysosome-dependent cell death, entosis, anoikis, ferroptosis, pyroptosis, anastasis, mitotic death and immunogenic cell death.
      Related Sustainable Development Goals

       



      Course Category

      Core Courses
      Major Area Courses
      Supportive Courses
      Media and Management Skills Courses
      Transferable Skill Courses

       

      WEEKLY SUBJECTS AND RELATED PREPARATION STUDIES

      Week Subjects Related Preparation Learning Outcome
      1 Introduction to cell death modalities Alberts et.al. 6th Edition. Chapter 18.
      2 Non-programmed cell death: Necrosis Alberts et.al. 6th Edition. Chapter 18.
      3 Programmed apoptotic cell death: Apoptotic Cell Death and Anoikis Galluzzi, Lorenzo et al. “Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018” Cell death and differentiation vol. 25,3 (2018): 486-541.
      4 Intrinsic and Extrinsic Apoptotic Cell Death Galluzzi, Lorenzo et al. “Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018” Cell death and differentiation vol. 25,3 (2018): 486-541.
      5 Apoptotic Cell Death Detection Methods Galluzzi, L et al. “Molecular definitions of cell death subroutines: recommendations of the Nomenclature Committee on Cell Death 2012” Cell death and differentiation vol. 19,1 (2011): 107-20.
      6 Programmed non-apoptotic cell death: Vacuole based
      7 Programmed non-apoptotic cell death: Mitochondria and iron based Kroemer, G et al. “Classification of cell death: recommendations of the Nomenclature Committee on Cell Death 2009” Cell death and differentiation vol. 16,1 (2008): 3-11.
      8 Mid-Term Exam Kroemer, G et al. “Classification of cell death: recommendations of the Nomenclature Committee on Cell Death 2009” Cell death and differentiation vol. 16,1 (2008): 3-11.
      9 Programmed non-apoptotic cell death: Vacuole based: Immunogenic cell death and others Galluzzi, Lorenzo et al. “Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018” Cell death and differentiation vol. 25,3 (2018): 486-541.
      10 Programmed cell death in prokaryotes Galluzzi, Lorenzo et al. “Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018” Cell death and differentiation vol. 25,3 (2018): 486-541.
      11 Clinical aspects of cell death Douglas R Green. Means to an End: Apoptosis and Other Cell Death Mechanisms. Cold Spring Harbor Laboratory Press. 2017. Galluzzi, Lorenzo et al. “Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018” Cell death and differentiation vol. 25,3 (2018): 486-541.
      12 Non-lethal processes such as anastasis, mitotic destruction and cellular senescence
      13 Cell-in-cell death (entosis, cannibalism and imperitosis) Galluzzi L, Buqué A, Kepp O, Zitvogel L, Kroemer G. Immunogenic cell death in cancer and infectious disease. Nat Rev Immunol. 2017 Feb;17(2):97-111. doi: 10.1038/nri.2016.107. Epub 2016 Oct 17.
      14 Semester review
      15 Semester review
      16 Final exam

       

      Course Notes/Textbooks

      Bruce Alberts, Alexander Johnson, Julian Lewis, David Morgan, Martin Raff, Keith Roberts, Peter Walter. Molecular Biology of the Cell. Sixth Edition. Chapter 18 – Cell Death. Garland Science, 2014: New York and Abingdon, UK.

      Douglas R Green. Means to an End: Apoptosis and Other Cell Death Mechanisms. Cold Spring Harbor Laboratory Press. 2017.

      Suggested Readings/Materials

      Galluzzi, Lorenzo et al. “Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018” Cell death and differentiation vol. 25,3 (2018): 486-541.

      Galluzzi, L et al. “Molecular definitions of cell death subroutines: recommendations of the Nomenclature Committee on Cell Death 2012” Cell death and differentiation vol. 19,1 (2011): 107-20.

      Kroemer, G et al. “Classification of cell death: recommendations of the Nomenclature Committee on Cell Death 2009” Cell death and differentiation vol. 16,1 (2008): 3-11.

      Sun G and Montell DJ. Q&A: Cellular near death experiences-what is anastasis? BMC Biol. 2017 Oct 24;15(1):92. doi: 10.1186/s12915-017-0441-z.

       

      EVALUATION SYSTEM

      Semester Activities Number Weigthing LO 1 LO 2 LO 3 LO 4 LO 5
      Participation
      Laboratory / Application
      Field Work
      Quizzes / Studio Critiques
      Portfolio
      Homework / Assignments
      1
      15
      Presentation / Jury
      1
      15
      Project
      Seminar / Workshop
      Oral Exams
      Midterm
      1
      30
      Final Exam
      1
      40
      Total

      Weighting of Semester Activities on the Final Grade
      3
      70
      Weighting of End-of-Semester Activities on the Final Grade
      1
      30
      Total

      ECTS / WORKLOAD TABLE

      Semester Activities Number Duration (Hours) Workload
      Theoretical Course Hours
      (Including exam week: 16 x total hours)
      16
      3
      48
      Laboratory / Application Hours
      (Including exam week: '.16.' x total hours)
      16
      0
      Study Hours Out of Class
      16
      2
      32
      Field Work
      0
      Quizzes / Studio Critiques
      0
      Portfolio
      0
      Homework / Assignments
      1
      10
      10
      Presentation / Jury
      1
      20
      20
      Project
      0
      Seminar / Workshop
      0
      Oral Exam
      0
      Midterms
      1
      20
      20
      Final Exam
      1
      20
      20
          Total
      150

       

      COURSE LEARNING OUTCOMES AND PROGRAM QUALIFICATIONS RELATIONSHIP

      #
      PC Sub 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.

      -
      -
      -
      -
      -
      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.

      -
      -
      -
      -
      -
      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.

      -
      -
      -
      -
      -
      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.

      -
      -
      -
      -
      -
      6

      To be able to work efficiently in Biomedical Engineering disciplinary and multi-disciplinary teams; to be able to work individually.

      -
      -
      -
      -
      -
      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.

      -
      -
      -
      -
      -
      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.

      -
      -
      -
      -
      -
      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


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