ISTANBUL OKAN UNIVERSITY INFORMATION PACKAGE / COURSE CATALOGUE
| Genetics and Bioengineering (English) | |||||
| Bachelor | TR-NQF-HE: Level 6 | QF-EHEA: First Cycle | EQF-LLL: Level 6 | ||
General course introduction information
| Course Code: | GBE420 | ||||||||
| Course Name: | Protein Engineering | ||||||||
| Course Semester: | Fall | ||||||||
| Course Credits: |
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| Language of instruction: | EN | ||||||||
| Course Requisites: | |||||||||
| Does the Course Require Work Experience?: | No | ||||||||
| Type of course: | Compulsory | ||||||||
| Course Level: |
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| Mode of Delivery: | Face to face | ||||||||
| Course Coordinator : | Dr.Öğr.Üyesi METİN YAZAR | ||||||||
| Course Lecturer(s): |
Dr.Öğr.Üyesi METİN YAZAR |
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| Course Assistants: |
Course Objective and Content
| Course Objectives: | This course is designated to provide the introduction knowledge to bioengineers necessary to discuss the basics and applications of protein engineering and enzymology methods and applications. At the end of this course the student will be able to: • underline the importance of protein biotechnology • discuss the therapeutical usage of hormones and growth factors such as insulin, LH, FSH, EPO, IGF etc. • explain interferons, interleukins and additional regulatory factors • comprehend protein purification methods • define enzyme biosynthesis, activity, catalysis, specificity and inhibition • discuss the tools of gene expression analysis |
| Course Content: | Introduction to protein biotechnology and its history, explanation of the basic properties of proteins, identification of primary, secondary, tertiary and quarternar structures of protein. Specific homons used therapeutically, disclosure of growth factors and production of recombinant hormones. Cytokines, interleukins and interferons and medical applications of these molecules. Definition of biosensors, identification, structure, synthesis and application of enzymes used for diagnostic and analytical purposes. Protein purification methods and application areas. Giving information about the concept, history, basic terminology and activity of enzyme. Purification methods, biosynthesis, inhibition and specificity of enzymes and explanation of enzyme kinetics. Gene expression analysis tools, protein expression methods, DNA-protein and protein-protein binding analysis methods. Stem cell definition, general characteristic structure, class explanation. |
Learning Outcomes
The students who have succeeded in this course;
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Lesson Plan
| Week | Subject | Related Preparation |
| 1) | • Syllabus • Introduction of protein biotechnology • History of protein biotechnology • Basic specificities of proteins • Protein Structure: Primary, secondary, tertiary and quaternary structure | |
| 2) | • Discuss the specific hormones and growth factors used therapeutically • Describe the recombinant hormone preparations • Discussing the effects and production of insulin • Discussing effects and production of LH and FSH • Discussing effects and production of growth hormone • Discussing effects and production of Erythropoietin (EPO) • Discussing the effects and production Platelet-derived growth factor (PDGF) •Discussing the effects and production Insulin-like growth factor (IGF) | |
| 3) | • Discussing the effects and production Epidermal growth factor (EGF) • Discussing the effects and production Fibroblast growth factor (FGF) • Discussing the effects and production Transforming growth factor (TGF) • Discussing the effects and production Thyroid stimulating hormone (TSH) • Discussing the effects and production Adrenocorticotropic hormone (ACTH) • Discussing the effects and production Prolactin • Discussing the effects and production Peptide regulatory factors | - |
| 4) | • Describe cytokines and interferon • Explain the medical applications of cytokines and interferons • Define the production of cytokines and interferon • Describe the interleukins • Discuss the applications of interleukins and their production • Describe the TNF • Discuss the application sand production of TNF | - |
| 5) | • Define the enzymes as diagnostic/analytical reagents • Describe biosensors: enzyme-based biosensors and non-enzyme-based biosensors • Describe the antibodies and the tools using antibodies • Explain synthesis procedures of antibodies • Describe the enzyme assays | - |
| 6) | • Describe the protein purification • Describe size exclusion chromatography • Describe separation based on charge or hydrophobicity • Describe sffinity chromatography • Describe HPLC | - |
| 7) | • Midterm Exam | - |
| 8) | • Describe the enzymes and history of enzymes, • Explain basic terminology with enzymes • Discuss the enzyme activity and catalysis • Define the subclasses of enzymes | - |
| 9) | • Define the primary recovery • Explain the process to leave whole cell debris • Define concentration steps and methods of primary recovery • Describe purification of recombinant proteins • Discuss storage of purified proteins | - |
| 10) | • Describe the biosynthesis of enzymes • Define specificity of enzyme action: types of specificity • Monomeric and oligomerics enzymes and their properties • Engineeered enzymes • Abenzymes | - |
| 11) | • Describe the meaning of enzymes kinetics • Describe the methods for deciding enzyme kinetics • Single-substrate enzyme reactions • Enzyme assays • Experimental measurement of enzyme activity • Factors affect the enzyme activity | - |
| 12) | • The definition of enzyme inhibition • Types of enzyme inhibition; • Discussing structure-activity relationship and inhibitor design | - |
| 13) | • Describe the model organisms • Compare transient and stable transfection assays • Describe reporter genes • Defining in vitro mutagenesis • Discuss the methods for RNA expression and localization • Discuss the methods for protein expression and localization • Describe antisense technology • Discuss the analyzing methods of DNA-protein and protein-protein interactions | - |
| 14) | • Discuss the general characteristics of stem cells • Define the term ‘potency’ of stem cells • Describe the classes of stem cells • Define ‘niche’ | - |
| 15) | • Final Exam | - |
Sources
| Course Notes / Textbooks: | • Proteins, Structure and Function, David Whitford ISBN: 978-0-471-49894-0 • Introduction to Enzyme and Coenzyme Chemistry" Bugg (1997) Blackwell Publishing |
| References: | • Proteins, Structure and Function, David Whitford ISBN: 978-0-471-49894-0 • Introduction to Enzyme and Coenzyme Chemistry" Bugg (1997) Blackwell Publishing |
Course-Program Learning Outcome Relationship
| Learning Outcomes | 1 |
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| Program Outcomes | ||||||||||
| 1) Sufficient knowledge in mathematics, science and engineering related to their branches; and the ability to apply theoretical and practical knowledge in these areas to model and solve engineering problems. | ||||||||||
| 2) The ability to identify, formulate, and solve complex engineering problems; selecting and applying appropriate analysis and modeling methods for this purpose. | ||||||||||
| 3) The ability to design a complex system, process, device or product under realistic constraints and conditions to meet specific requirements; the ability to apply modern design methods for this purpose. (Realistic constraints and conditions include such issues as economy, environmental issues, sustainability, manufacturability, ethics, health, safety, social and political issues, according to the nature of design.) | ||||||||||
| 4) Ability to develop, select and use modern techniques and tools necessary for engineering applications; ability to use information technologies effectively. | ||||||||||
| 5) Ability to design experiments, conduct experiments, collect data, analyze and interpret results to examine engineering problems or discipline-specific research topics. | ||||||||||
| 6) The ability to work effectively in disciplinary and multidisciplinary teams; individual work skill. | ||||||||||
| 7) Effective communication skills in Turkish oral and written communication; at least one foreign language knowledge; ability to write effective reports and understand written reports, to prepare design and production reports, to make effective presentations, to give and receive clear and understandable instructions. | ||||||||||
| 8) Awareness of the need for lifelong learning; access to knowledge, ability to follow developments in science and technology, and constant self-renewal. | ||||||||||
| 9) Conform to ethical principles, and standards of professional and ethical responsibility; be informed about the standards used in engineering applications. | ||||||||||
| 10) Awareness of applications in business, such as project management, risk management and change management; awareness of entrepreneurship, and innovation; information about sustainable development. | ||||||||||
| 11) Information about the universal and social health, environmental and safety effects of engineering applications and the ways in which contemporary problems are reflected in the engineering field; awareness of the legal consequences of engineering solutions. | ||||||||||
Course - Learning Outcome Relationship
| No Effect | 1 Lowest | 2 Low | 3 Average | 4 High | 5 Highest |
| Program Outcomes | Level of Contribution | |
| 1) | Sufficient knowledge in mathematics, science and engineering related to their branches; and the ability to apply theoretical and practical knowledge in these areas to model and solve engineering problems. | 2 |
| 2) | The ability to identify, formulate, and solve complex engineering problems; selecting and applying appropriate analysis and modeling methods for this purpose. | 2 |
| 3) | The ability to design a complex system, process, device or product under realistic constraints and conditions to meet specific requirements; the ability to apply modern design methods for this purpose. (Realistic constraints and conditions include such issues as economy, environmental issues, sustainability, manufacturability, ethics, health, safety, social and political issues, according to the nature of design.) | 1 |
| 4) | Ability to develop, select and use modern techniques and tools necessary for engineering applications; ability to use information technologies effectively. | 1 |
| 5) | Ability to design experiments, conduct experiments, collect data, analyze and interpret results to examine engineering problems or discipline-specific research topics. | |
| 6) | The ability to work effectively in disciplinary and multidisciplinary teams; individual work skill. | |
| 7) | Effective communication skills in Turkish oral and written communication; at least one foreign language knowledge; ability to write effective reports and understand written reports, to prepare design and production reports, to make effective presentations, to give and receive clear and understandable instructions. | |
| 8) | Awareness of the need for lifelong learning; access to knowledge, ability to follow developments in science and technology, and constant self-renewal. | |
| 9) | Conform to ethical principles, and standards of professional and ethical responsibility; be informed about the standards used in engineering applications. | |
| 10) | Awareness of applications in business, such as project management, risk management and change management; awareness of entrepreneurship, and innovation; information about sustainable development. | |
| 11) | Information about the universal and social health, environmental and safety effects of engineering applications and the ways in which contemporary problems are reflected in the engineering field; awareness of the legal consequences of engineering solutions. |
Learning Activity and Teaching Methods
| Expression | |
| Brainstorming/ Six tihnking hats | |
| Individual study and homework | |
| Lesson | |
| Q&A / Discussion |
Assessment & Grading Methods and Criteria
| Written Exam (Open-ended questions, multiple choice, true-false, matching, fill in the blanks, sequencing) | |
| Bilgisayar Destekli Sunum |
Assessment & Grading
| Semester Requirements | Number of Activities | Level of Contribution |
| Presentation | 1 | % 20 |
| Midterms | 1 | % 30 |
| Final | 1 | % 40 |
| Kanaat Notu | 1 | % 10 |
| total | % 100 | |
| PERCENTAGE OF SEMESTER WORK | % 60 | |
| PERCENTAGE OF FINAL WORK | % 40 | |
| total | % 100 | |
Workload and ECTS Credit Grading
| Activities | Number of Activities | Duration (Hours) | Workload |
| Course Hours | 15 | 3 | 45 |
| Total Workload | 45 | ||