AIM AND VISION OF MASTER COURSE (MSc.) PROGRAM IN ...fbe.yeditepe.edu.tr/files/Bologna Paketi...
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AIM AND VISION OF MASTER COURSE (MSc.) PROGRAM IN BIOTECHNOLOGY:
The Biotechnology program was initiated on September 2011 in the Institute of Science and
Engineering, at Yeditepe University. Through R&D and higher education facilities, the program
aims to train individuals in finding creative solutions to the issues that society faces in the fields
of healthcare, agriculture, food industry and environment, hence providing a trained workforce
in the field of biotechnology.
The vision of the biotechnology program is to work in collaboration with international and
national universities, Techoparks, and R&D Institutes in training and educating professionals,
and to have a voice in the scientific and economical national politics by participating in industry
oriented projects.
ADMISSION TO MASTER’S (M.Sc.) PROGRAM:
To apply for a master's program, a Bachelor's degree must be held or expected to be held by
the end of the term of application and the requirements given below must be met.
- A minimum B.S. cumulative grade point average (CGPA) of 2.00 out of 4.00.
- A minimum score of 55 from ALES or 148 from GRE (Quantitative Reasoning).
- A minimum of 55 from YDS or 66 from TOEFL. Canditates who don’t have aforementioned
scores are required to be successful in the Yeditepe University’s proficiency exam.
- Candidates are required to be successful in the interview held by the department they are
applying for.
GRADUATION REQUIREMENTS FOR BIOTECHNOLOGY MSc. PROGRAM
Students registered with the Biotechnology Master of Science Program should register to
courses with a total of 22 credits / 124 ECTS according to the table below. Courses outside the
Yeditepe University Biotechnology MSc program could only be taken with the approval of the
Advisor and the Chair.
Curriculum for Master of Science Program in Biotechnology
Core Courses
BTEC 501 Basic Biotechnology (4 0 0) 4 / 10 ECTS
BTEC 550 Methods in Scientific Research (0 0 3) 3 / 10 ECTS
BTEC 555 Biostatistics (1 0 4) 3 / 10 ECTS
BTEC 590 Graduate Seminar NC / 2 ECTS
BTEC 600 Thesis in MSc NC / 60 ECTS
Elective Courses
BTEC 502 Clinical Genetics (3 0 0) 3 / 8 ECTS
BTEC 504 Pharmaceutical and Medical Biotechnology (3 0 0) 3 / 8 ECTS
BTEC 505 Microbiology (3 0 0) 3 / 8 ECTS
BTEC 506 Plant Biotechnology (3 0 0) 4 / 8 ECTS
BTEC 507 Advanced Biochemistry (3 0 0) 3 / 8 ECTS
BTEC 511 Comparative Physiology (3 0 0) 3 / 8 ECTS
BTEC 512 Ecology (3 0 0) 3 / 8 ECTS
BTEC 513 Introduction to Bioinformatics . (3 0 0) 3 / 8 ECTS
BTEC 514 Cancer Genetics (3 0 0) 3 / 8 ECTS
BTEC 516 Introduction to Nanobiotechnology (3 0 0) 3/ 8 ECTS
BTEC 517 Immunobiology (3 0 0) 3/ 8 ECTS
BTEC 519 Microbiological Aspects of Food Systems (3 0 0) 3 / 8 ECTS
BTEC 521 Gene Expression (3 0 0) 3 / 8 ECTS
BTEC 528 Processing of Bioactive Extracts from Natural Materials (3 0 0) 3/ 8 ECTS
BTEC 532 Drug Delivery Systems and Instruments (3 0 0) 3/ 8 ECTS
BTEC 533 Biomaterials in Tissue Engineering (3 0 0) 3/ 8 ECTS
BTEC 534 Transgenics and Gene Therapy (3 0 0) 3/ 8 ECTS
BTEC 535 Mammalian Tissue Engineering (3 0 0) 3/ 8 ECTS
BTEC 536 Stem Cell (3 0 0) 3/ 8 ECTS
BTEC 537 Dosage in Proteins and Peptides (3 0 0) 3/ 8 ECTS
BTEC 538 Nutrigenomics (3 0 0) 3/ 8 ECTS
BTEC 539 Protein Chemistry (3 0 0) 3/ 8 ECTS
BTEC 582 Selected Topics: Signal Transduction Pathways (3 0 0) 3/ 8 ECTS
BTEC 584 Selected Topics: Adult Neurogenesis (3 0 0) 3/ 8 ECTS
BTEC 585 Selected Topics: Microbial Metabolism (3 0 0) 3/ 8 ECTS
BTEC 586 Selected Topics: Applications of Biostatistics in Research (3 0 0) 3/ 8 ECTS
2. YEAR
Thesis Work
COURSE CONTENTS
BTEC 501 Basic Biotechnology (4 0 0) 4
Fermentation technology; basic techniques in biotechnology; biological separation methods for
city and industrial waste water treatment; waste water treatment and bioenergy production via
anaerobic fermentation; malt and beer technology, wine and vinegar technology; lactic acid
fermentation, production of bread yeast.
BTEC 502 Clinical Genetics (3 0 0) 3
Basic medical genetics, pedigree analysis, methods in genetic analysis, statistical methods in
clinical genetic analysis, gene frequencies in populations, selective pressure and mutation
speed, genetic distribution and consanguineaus marriages, disjunction and nondisjunction
analysis, monogenic and polygenic traits, analysis of certain inherited disorders, chromosomes
and karyotyping, clinical cytogenetics, prenatal diagnosis.
BTEC 504 Pharmaceutical and Medical Biotechnology (3 0 0) 3
This course includes theoretical background of the application of biotechnology techniques and
applications on therapeutic products, gene therapy, gene application techniques, tissue
engineering, antibody engineering, monoclonal antibodies, vaccines, sera and pharmaceutical
applications.
BTEC 505 Microbiology (3 0 0) 3
This course focuses on the impact of microorganisms on people and the environment. The
growth of microorganisms, their classification, impact on human and plant diseases,
microecology of the water and soil, bacterial genetics, and the applicaiton of microorganisms
in food and industrial technologies, agriculture, pollution and biotechnology will be
investigated. Microbial techniques, human genetics and biotechnology will be discussed.
BTEC 506 Plant Biotechnology (3 0 0) 4
Plant physiology, growth control and hormones, plant tissue engineering techniques, protoplast
cultures, somatic embryogenesis, transformation and regeneration techniques, plant genetics
and A. thaliana modification, transgenic seed studies, improvement of seed production and
quality, improvement of biomass, plant pathogens and improvement of pathogen resistance,
improvement of cold and draught resistance, plant reactors in the production of proteins,
antigens and antibodies.
BTEC 507 Advanced Biochemistry (3 0 0) 3
The life of molecules, structure of carbohydrates and their function, lipids, proteins and nucleic
acids, flow of genetic information, enzymes and enzyme kinetics, membrane structure,
dynamics and function, introduction of bioenergetics, laws of thermodynamics, ATP and
energy, cellular metabolism and fermentation, glycolysis, TCA cycle, oxidative
phosphorylation, photosynthesis, amino acid metabolism, nucleic acid metabolism, fatty acid
metabolism.
BTEC 510 Biotechnology Laboratory Projects (1 0 4) 3
This course involves the thesis project of the master of science candidate, assigned by their
possible thesis advisor. The course is mandatory during the first 2 semesters of the master’s
program.
BTEC 511 Comparative Physiology (3 0 0) 3
Cell physiology, intracellular signaling systems, endocytosis, nervous system and evolution,
muscular, respiratory, circulatory systems and their physiologies, special senses and hormones.
BTEC 512 Ecology (3 0 0) 3
The interaction of the organisms with their biological and physical environments, concepts of
ecosystem, environmental requirements of organisms, restrictive elements, energy conversions
in the ecosystem, population ecology and community ecology principles, plant entomology.
BTEC 513 Introduction to Bioinformatics (3 0 0) 3
Biological sequence (DNA, RNA, protein) analysis: alignment, scoring matrices, sequence
similarity and distance, motif search; molecular structure prediction: RNA secondary structure
prediction, protein folding, protein threading, homology modeling; functional genomics and
proteomics: microarray data analysis, transcriptomics, SNP and exon array analysis, high-
throughput protein profiling; pathway analysis: network modeling, graph theory, biochemical
and metabolic pathway simulations; bioinformatic tools: introduction to principles, concepts
and uses of online biological databases and software tools used in the analysis of biological
data.
BTEC 514 Cancer Genetics (3 0 0) 3
Cell proliferation and molecular mechanism, cell cycle and its regulation, oncogenes and tumor
suppressors, diagnostics and therapy. Viral, chemical and physical agents that cause cancer,
tumor types, comparison of embryonic and neoblastic cells, molecular and metabolic properties
of cancer cells, and recent developments in cancer biology.
BTEC 516 Introduction to Nanobiotechnology (3 0 0) 3
This course will cover the biotechnology and biomedicine applications of nanotechnology
world. The methods used for nanotechnology and nanofabrication, medical and
biotechnological applications, future of nanobiotechnology, and its use in diagnostics,
nanofabrication, carbon nanotubes will be covered in addition to molecular production
methods, nano-molecular interactions, molecular transport, self-assembly process, hybrid
species through addition of nanomaterials to biological molecules, nanopower, nano-stroll,
manipulation and control at the nano scale, nano robots and machines, and other recent
applications in the field.
BTEC 517 Immunobiology (3 0 0) 3
Natural and acquired immunity, immunity through transplanted cells, activation and
differentiation of B-lymphocytes, the structure and function of an antibody molecule, antigen-
antibody interactions, differentiation mechanis monoclonal antibodies, the lymphoid system,
MHC restriction, activation and differentiation of the T-lymphocytes, immune tolerance,
immune diseases, sensitivity, fever and allergy, vaccines, autoimmunity, immune deficiencies
and AIDS.
BTEC 519 Microbiological Aspects of Food Systems (3 0 0) 3
National and international impacts of heightened concerns on food safety policy and regulations
affecting the food chain from production to consumption; Physical, metabolic and genetic
characteristics of microorganisms that mediate food fermentations, spoilage or foodborne
illness; Ecology of foods and effects on foodborne microorganisms (fermentative, spoilage and
pathogenic); Microbial injury; Interactions of fermentative microorganisms with spoilage
and/or pathogenic species; The basis for experimental techniques for examining phenotypic or
genetic characteristics of fermentative or pathogenic microorganisms; Molecular and
immunological methods for detecting and identifying foodborne microorganisms
BTEC 528 Processing of bioactive extracts from natural materials (3 0 0) 3
Bioactive phytochemicals from natural sources: phenolic compounds and polyphenols, major
and minor lipid components, essential oils; their processing, characterization, and determination
of bioactivity. Extraction techniques for their processing: distillation, solvent extraction,
supercritical carbon dioxide extraction, pressurized liquid extraction.
BTEC 532 Drug Delivery Systems and Instruments (3 0 0) 3
Topics in this lecture includes intorduction to drug delivery systems, design of drug delivery
systems, targeted drug delivery systems, polymers etc used in the deisgn of these delivery
systems, transport and pharmacokinetics of drugs, various drug release mechanisms,
pharmaceutical drug delivery systems, and clinical applications.
BTEC 533 Advanced Biomaterials (3 0 0) 3
Properties of materials; Classes of materials used in medicine; Host reactions to biomaterials
and their evaluation; Biological testing of biomaterials; Degradation of materials in the
biological environment; Application of Materials in Medicine, Biology and Artificial Organs
and Biomaterials in Tissue Engineering
BTEC 534 Transgenics and Gene Therapy (3 0 0) 3
Transgenics and animal cloning, biotechnology, transgenic applications in agricultural and
pharmaceutical industries, basic gene therapy techniques, viral vectors and virotherapy, gene
therapy in neurological and immune system disorders and sample cases, cancer gene therapy
and technical problems, human cloning and ethical issues
BTEC 535 Mammalian Tissue Engineering (3 0 0) 3
Introduction to Tissue Engineering; Types and organization of cells, Cellular processes and
Cell-ECM interaction; Cell and Tissue Culture, Bioreactors; Gene expression, Cell
determination; Growth Factors (Cell differentiation); Biomaterials I (Properties, Surface
modifications); Biomaterials II (Biodegradable Polymers); Cell-Biomaterial Interactions
BTEC 536 Stem Cell (3 0 0) 3
Isolation of stem cells, their growth and differentiation potentials, embryonic stem cell
technologies, restriction and differentiation of embryonic stem cells, adult stem cells and tissue
repair, bone marrow-derived stem cells, cloned human embryonic stem cells and potential
applications, therapeutic cloning, potential applications of stem cell technologies, ethical issues.
BTEC 537 Dosage in Proteins and Peptides (3 0 0) 3
Design of dosage format in proteins and peptides I: introduction of proteins and peptides,
physical and chemical stability, properties of preformulation and formulation, commercial
preparates and controls, EFB design of dosage format in proteins and peptides II: oral,
parenteral, rectal, nasal, dermal and ocular dosage types, pharmacokinetic properties,
absorption, enzymatic problems, in vivo stability, prodrug approach.
BTEC 538 Nutrigenomics (3 0 0) 3
The effects of diet on molecular physiology, diet-gene and cancer-diet interactions and complex
diseases, individual genetic variations and dietary response, metabolic syndromes, functional
food and nutriceuticals, functional nutrigenomics, transcriptomics and proteomics, recent
advances and applications in nutrigenomics
BTEC 539 Protein Chemistry (3 0 0) 3
Theory and techniques of quantitative analysis of biologically important macromolecules;
thermodynamic and kinetic principles underlying these separation techniques; introduction to
protein structure and function; protein folding and chaperones; protein stability and turnover;
proteasome and protein degradation; ubiquitination and sumoylation; enzyme kinetics and
action; protein-protein interactions; DNA replication; DNA recombination; transcription and
translation.
BTEC 550 Methods in Scientific Research (0 0 3) 3
Article reading and writing, project preparation and presentation, bioethics, biosafety, statistical
methods, use of scientific software specific to the area of research.
BTEC 555 Biostatistics (1 0 4) 3
Fundamentals of biostatistics, various statistical tests (Mann-Whitney, Wilcoxon, Friedman
etc.), ANOVA, Evaluation of high throughput data, Correlation analysis, Basices of
experimental design for biological systems, Power analysis, Statistical methods in sequence
analysis, sampling methods, regression analysis, model based statistical optimization
BTEC 582 Selected Topics: Signal Transduction Pathways (3 0 0) 3
Cell-to-cell communication and signaling mechanisms; signals and receptors, adaptor proteins,
kinase and phosphatases, G protein signaling cascades, small GTP-binding proteins,
phosphatidyl inositol signaling mechanisms- calcium signaling, signaling scaffolds and
signaling between cascades, examples from signaling mechanisms such as Wnt, Notch, BMP
etc; the role of signaling mechanisms in development and disease
BTEC 584 Selected Topics: Adult Neurogenesis (3 0 0) 3
Neural stem cells, neuronal development, neurogenesis in adult olfactory system, adult
hippocampal neurogenesis, neurogenic and non-neurogenic zones, neurogenesis research
methods, regulation and function of neurogenesis, applications of neurogenesis in medicine
BTEC 585 Selected Topics: Microbial Metabolism (3 0 0) 3
Metabolic reactions of microorganisms; microbial energy metabolism (I): glycolysis and TCA
cycle, microbial energy metabolism (II): respiration, fermentation, regulation of microbail
metabolism, nitrogen metabolism, reduction of organic compounds, synthesis of cellular
products and constituents, metabolic engineering and evolutionary engineering
BTEC 586 Selected Topics: Applications of Biostatistics for Research
(3 0 0) 3
Defining appropriate statistical methods for biological and genetics research studies, hypothesis
testing, the inner dynamics of given statistical methods for understanding their logic, input and
output, ANOVA, the difference between the applications of paired and unpaired t-tests, and
other statistical analysis methods such as Kruskal Wallis statistic, Spearman rank correlation,
Wilcoxon signed rank test, Log-rank test, Chi-square test for analysis of contingency tables,
and survival analysis.
BTEC 590 Graduate Seminar NC
Seminars given by faculty members or guest speakers on recent developments in the areas of
genetics, molecular biology, bioengineering, bioinformatics and similar topics, with the
ultimate purpose of expanding the students’ horizons in these areas and on how to make a
presentation in conferences and meetings.
BTEC 600 Thesis in MSc NC
BOLOGNA AND BIOTECHNOLOGY MSc PROGRAM LEARNING OUTCOMES COURSES
PP001 LO001.
Advanced level knowledge of mathematics, statistics, and bioengineering.
BTEC501, BTEC510, BTEC600, BTEC503, BTEC504, BTEC505, BTEC507, BTEC509, BTEC512, BTEC513, BTEC516, BTEC519, BTEC527, BTEC528, BTEC532, BTEC533, BTEC535, BTEC536, BTEC537, BTEC550, BTEC586
PP002 LO002. The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
BTEC510, BTEC504, BTEC506, BTEC513, BTEC516, BTEC527, BTEC528, BTEC532, BTEC533, BTEC534, BTEC537, BTEC550
PP003 LO003. The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
BTEC510, BTEC550, BTEC502, BTEC504, BTEC507, BTEC509, BTEC513, BTEC527, BTEC532, BTEC537, BTEC539, BTEC585, BTEC582, BTEC586
PP004 LO004. The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
BTEC510, BTEC509, BTEC513, BTEC516, BTEC533, BTEC535, BTEC586
PP005 LO005. The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
BTEC550, BTEC600
PP006 LO006. The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
BTEC501, BTEC550, BTEC590, BTEC600, BTEC502, BTEC505, BTEC506, BTEC512, BTEC514, BTEC515, BTEC518, BTEC534, BTEC536, BTEC538, BTEC584,
PP007 LO007. The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
BTEC550, BTEC504, BTEC511, BTEC513, BTEC516, BTEC527, BTEC528, BTEC532,
BTEC533, BTEC534, BTEC535, BTEC586
PP008 LO008.
The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
BTEC501, BTEC503, BTEC505, BTEC506, BTEC507, BTEC512, BTEC513, BTEC516, BTEC517, BTEC534, BTEC535, BTEC536, BTEC539, BTEC550, BTEC585
PP009 LO009.
The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
BTEC501, BTEC550, BTEC590, BTEC600, BTEC502, BTEC505, BTEC506, BTEC512, BTEC514, BTEC515, BTEC518, BTEC534, BTEC536, BTEC538, BTEC584,
PP010 LO010 The ability to express oneself in English orally and in writing at global platform.
BTEC550, BTEC590, BTEC600
PROGRAM PROFICIENCY
PP001: Equipped with advanced level theoretical and practical knowledge and skills in mathematical, scientific, and engineering (especially in bioengineering) fields, which are required in academic or industrial life.
PP002: Provides efficient solution with scientific methods and analytical techniques to the questions and issues, by having the theoretical and practical fundamental biotechnology and molecular biological knowledge and the skills to design and operate the experiments related to the genetics and bioengineering.
PP003: Equipped with skills in the collection, analysis, and interpretation of experiment/investigation/ research results and/or data in the filed of Biotechnology using classical methods (i.e. classical genetics calculations) and as well as computerized technology (i.e. bioinformatics tools).
PP004: Participates in decision-making process by taking role in planning and time management with analytical thinking ability and literature mining by accessing to the databases and other information sources, as an individual or as a member of interdisciplinary team collaborations in studies in biotechnology fields
PP005:. Equipped with skills in presenting scientific studies in the field of biotechnology systematically and clearly at national and international platforms.
PP006: The ability to have clear communication skills, in oral and written forms, on current topics of biotechonology using information and communication technology, and to involve in teamwork and interdisciplinary studies by developing responsible, innovative, self-confident and competitive personal skills.
PP007: Provides consciousness about the impact of bioengineering and biotechnology at the global and social levels, and produce and announce novel and innovative solutions (that can improve international competitiveness) to the problems in the field through projects and events organizations.
PP008: Critically evaluates the gained knowledge and skills in biotechnology field by closely following the advances in science and technology and sustains a professional progress in the light of lifelong education, learning, self-improvement notions.
PP009: Possesses the awareness of occupational ethics and social responsibilities, states declarations and applications convenient to social and cultural values, avoid any kind of statement or activity of endangering the environmental and human health, and self-concious about the legal issues surrounding the biotechnological applications.
PP010: The ability to use written and oral English in national and international publications according to the B2 level of the Common European Framework of Reference for Language.
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
FUNDEMENTALS OF
BIOTECHNOLOGY BTEC 501
1-2 3 + 0 3 10
Prerequisites NONE
Language of Instruction
English
Course Level MSc
Course Type Compulsory
Course Coordinator
Assoc.Prof.Dr. Fatma Neşe Kök
Instructors Assoc.Prof.Dr. Fatma Neşe Kök
Assistants NONE
Internship NONE
Goals To understand the importance of biomaterials in Medicine and provide background information about the usage area of biomaterials
Content
Basis of fermentation technology; fundamentals of enzyme engineering; purification of biomolecules; classification of bioreactors; utilization of genetically modified microorganisms; transgenic plants and animals; environmental biotechnology; medical biotechnology; sustainability
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns about the different areas of biotechnology
1,4,8,9 1,2 A,C
2) Learns fermentation technology, types of bioreactors and their applications
1 1,2 A
3) Learns the usage of different organisms and cells in the production
1 1,2 A
4) Understands the effect of protein engineering and recombinant DNA technology on biotechnology
1,7,8 1,2 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction; Biotechnology as an interdisciplinary area Textbook and Add.
Sources
2 Fermentation technology and bioreactors-1 Textbook
3 Fermentation technology and bioreactors-2 Textbook
4 Purification of biomolecules Textbook
5 Industrial enzymes Textbook and Add.
Sources
6 Protein engineering Textbook and Add.
Sources
7 Sustainability Textbook and Add.
Sources
8 Midterm Textbook
9 Environmental biotechnology Textbook and Add.
Sources
10 Transgenic plats and animals Textbook
11 Medical biotechnology-1 Textbook and Add.
Sources
12 Medical biotechnology-2 Textbook and Add.
Sources
13 Presentations Add. Sources
14 Presentations Add. Sources
RECOMMENDED SOURCES
Textbook
Introduction to Biotechnology, 2nd edition, William J. Thieman and Michael A. Palladino, Pearson Int. Ed., 2009 Introduction to Biotechnology, W. J. Thieman ve M. A. Palladino, Benjamin Cummings; 2008, ISBN-10: 0321491459
Additional Resources Recent papers
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Presentations from recent papers will be prepared
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Assignment 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Expertise
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 8 112
Mid-term examination 1 15 15
Laboratory - - -
Homework 1 40 40
Project - - -
Final examination 1 30 30
Total Work Load 239
Total Work Load / 25 (h) 9.56
ECTS Credit of the Course 10
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
PHARMACEUTICAL AND MEDICAL BIOTECHNOLOGY
BTEC 504
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof. Dr.Recep Serdar Alpan
Instructors Prof. Dr.Recep Serdar Alpan Prof. Dr. Ece Genç
Assistants NONE
Internship NONE
Goals
To understand theoretical background of the application of biotechnology techniques and applications on therapeutic products, gene therapy, gene application techniques, tissue engineering, antibody engineering, monoclonal antibodies, vaccines, sera and pharmaceutical applications.
Content
Introduction to Medical Biotechnology; Protein isolation and expression technics in Medical Biotechnology; Biotechnology in Pharmaceutical Production; Tissue Engineering; Monoclonal antibodies and cellular targeted immunologic therapeutic applications; Drug development with Recombinant DNA Technology; Gene Therapy Applications in Medicine siRNA, Micro-RNA Drugs; Recombinant Vaccines; Drugs that reverse Drug Resistance
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands theoretical background of the application of biotechnology techniques and applications on therapeutic products
2,4,9 1,2 A,C,D
2) Learns types of cells used in Tissue Engineering and Recombinant technology
2,3,4,7 1,2 A,C,D
3) Learns Gene Therapy and effect on ethics
2,3,4,7 1,2 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to Medical Biotechnology Textbook and
Current Literature
2 Protein isolation and expression technics in Medical Biotechnology
Textbook and Current Literature
3 Biotechnology in Pharmaceutical Production Textbook and
Current Literature
4 Tissue Engineering Textbook and
Current Literature
5 Monoclonal antibodies and cellular targeted immunologic therapeutic applications
Textbook and Current Literature
6 Drug development with Recombinant DNA Technology I
Textbook and Current Literature
7 Drug development with Recombinant DNA Technology II
Textbook and Current Literature
8 Mid-term Textbook and
Current Literature
9 Gene Therapy Applications in Medicine I Textbook and
Current Literature
10 Gene Therapy Applications in Medicine I Textbook and
Current Literature
11 siRNA, Micro-RNA Drugs Textbook and
Current Literature
12 Recombinant Vaccines I Textbook and
Current Literature
13 Recombinant Vaccines II Textbook and
Current Literature
14 Drugs that reverse Drug Resistance Textbook and
Current Literature
RECOMMENDED SOURCES
Textbook Pongracz & Keen, Medical Biotechnology, Churchill Livingston, Elsevier
Additional Resources Current Literatures about Medical Biotechnolgy
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
12 9 108
Mid-term examination 1 3 3
Laboratory - - -
Homework - - -
Project 1 30 30
Final examination 1 3 3
Total Work Load 186
Total Work Load / 25 (h) 7.44
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
Clinical Genetics BTEC 502 1 3+0 3 8
Prerequisites None
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator Assist. Prof. Dr. Ayşegül Kuşkucu
Instructors Assist. Prof. Dr. Ayşegül Kuşkucu
Assistants NONE
Internship NONE
Goals
Improve the knowledge of genetic disorders in
human, their inheritance, diagnosis and screening
methods and their clinical (routine) application and
research.
Content
This course will cover human genetic disorders, their
classification, inheritance pattern and risk calculation,
diagnostic methods according to clinical classification,
prenatal and preimplantation genetic diagnosis
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
Students define basic principles of genetic disorders
1,2,3 A
Students define genetic and inherited disorder and determine recurrence risks,
1,2,3,4 A
Students determine the diagnostic methods to be applied and recommended in genetic diseases.
1,2,3,4 A
Students discuss potential work and possible ideas that can be reflected in the clinic.
2,3 A
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Discussion, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to Medical Genetics Class notes/text
book
2 Classification of genetic disorders Class notes/text
book
3 Single gene disorders I Class notes/text
book
4 Single gene disorders II Class notes/text
book
5 Chromosomal disorders I Class notes/text
book
6 Chromosomal disorders II Class notes/text
book
7 Compleks disorders Class notes/text
book
8 Diagnosis and screening methods for genetic disorders (routine)
Class notes/text book
9 Diagnosis and screening methods for genetic disorders (research)
Class notes/text book
10 Prenatal and preimplantation genetic diagnosis Class notes/text
book
11 Acquired genetic disorders Class notes/text
book
12 Developmental genetics and birth defects Class notes/text
book
13 Genetic counseling Class notes/text
book
14 Ethic and legal issues Class notes/text
book
RECOMMENDED SOURCES
Textbook Trunpenny P, Ellard S, Emery’s Elements of Medical Genetics, Elsevier 2017 Thompson, Medical Genetics, Elsevier 2016
Additional Resources
MATERIAL SHARING
Documents Lecture notes are shared with the students
Assignments
Exams 1 final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms
Laboratory
Assignment
Project
Total
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
100
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
X
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 52
Hours for off-the-classroom study (Pre-study, practice)
14 6 84
Mid-term examination
Laboratory
Homework
Project
Final examination 14 3 52
Total Work Load 161
Total Work Load / 25 (h) 6,44
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
MICROBIOLOGY BTEC 505 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Assist Prof. Dr. May Korachi
Instructors Assist Prof. Dr. May Korachi
Assistants NONE
Internship NONE
Goals
This course integrates an introduction to microbiology with an emphasis on the important skills of: 1) critical thinking; 2) scientific writing; and 3) public presentation. This course seeks to provide students with an understanding of important scientific concepts, an ability to think critically, and an understanding of the importance of microbiology to society in general. Additionally, this course seeks to provide an appreciation of the importance of the natural world.The study of the taxonomy, morphology, and physiology of microorganisms, emphasizing: 1) their relation to medicine, industry, agriculture and use in biotechnology
Content
Although the specific focus is on microorganisms, the course
incorporates a thorough review of important subjects (e.g.,
cellular respiration, enzyme activity, basic genetics, use of
microbes in genetic study and biotechnology). Microbes used
in genetic studies, for industrial purposes, and for medical
research.
Course Learning Outcomes Program Teaching
Methods Assessment
Methods
Learning Outcomes
1) Develops a sufficient background for those students who wish to study more advanced topics related to microbes
5,8,9 1,2 A,C,D
2) Provides familiarity with basic microbes in medicine, food and agriculture
5,8,9,10 1,2 A,C,D
3) Provides an understanding of the role of microbes in disease transmission and prevention
5,8,9,10 1,2 A,C,D
4) Aids the development of the ability to think scientifically and to evaluate information critically through case studies and presentations.
4,5,8,9,10 1,2,4 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Anaerobic, aerobic and microaerophilic microorganisms Textbook
2 Microbes in food and dairy Textbook
3 Microbes in agriculture Textbook
4 Oral microbes Textbook
5 Medical microbes in disease Textbook
6 Microbial diversity and Extremophiles
Textbook
7 Environmental Microbial Technology
Textbook
8 Environmental Microbial Technology
Textbook
9 Midterm Textbook
10 Bioprocess Engineering and Technology
Textbook
11 Recombinant DNA Technology Textbook
12 Enzyme Technology Textbook
13 Fermentation Technology Textbook
14 Recent trends in Virology and microbiology Textbook
RECOMMENDED SOURCES
Textbook Microbiology. L.M. Prescott, J.P. Harley, and D.A. Klein. Fifth edition. WCB/McGraw-Hill Press, Boston, MA 2002.
Additional Resources Lecture slides and handouts
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Case studies and group assignments with presentations.
Exams 1 Midterm, 1 case studyhomework & presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Assignment (case study) 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 1 5 5
Laboratory - - -
Homework 2 20 40
Project (case study) 1 40 40
Final examination 1 6 6
Total Work Load 189
Total Work Load / 25 (h) 7.56
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
PLANT BIOTECHNOLOGY BTEC 506 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Asst.Prof.Dr. Andrew Harvey
Instructors Asst.Prof.Dr. Andrew Harvey
Assistants NONE
Internship NONE
Goals To understand the basic principles involved in
Content
Plant physiology, growth control and hormones, plant tissue engineering techniques, protoplast cultures, somatic embryogenesis, transformation and regeneration techniques, plant genetics and A. thaliana modification, transgenic seed studies, improvement of seed production and quality, improvement of biomass, plant pathogens and improvement of pathogen resistance, improvement of cold and drought resistance, plant reactors in the production of proteins, antigens and antibodies.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands the basic concepts of plant genetics and inheritance.
1,8 1,2 A,C
2) Understands basic plant biology and physiology and their application in plant tissue culture
1,8 1,2 A,C
3) Interprets and explains plant DNA vector construction and the methods and goals of plant transformation.
1,4 1,2 A,C
4) Explains and evaluates the analysis of transgenic plants.
1,4,7 1,2 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to Genetic Modification of Plants Textbook
2 Flavr Savr Tomatoes Textbook
3 Bt Gene Technology; Roundup Ready Technology Textbook
4 Golden Rice Technology Textbook
5 Midterm 1 Textbook
6 Functional Genomics Technologies I Textbook
7 Functional Genomics Technologies II Textbook
8 Abiotic Stress Resistance Textbook
9 Food Industry Technologies Textbook
10 Assignment week Textbook
11 Plant Cell Wall Technologies I Textbook
12 Plant Cell Wall Technologies II Textbook
13 Plant Cell Walls and Nutrition Textbook
14 Biofuels Technology Textbook
RECOMMENDED SOURCES
Textbook “Plant Biotechnology: The genetic manipulation of plants” 2nd Ed., Slater A., Scott N.W., Fowler M.R., Oxford University Press
Additional Resources Any recent textbook on advanced plant biotechnology will be of use.
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Report/essay on a current/emerging plant biotechnology topic.
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Assignment 1 15
Term Project 1 35
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 6 84
Mid-term examination 1 3 3
Laboratory - - -
Homework 1 20 20
Project 1 30 30
Final examination 1 6 6
Total Work Load 185
Total Work Load / 25 (h) 7.40
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester L+P Hour Credits ECTS
ADVANCED BIOCHEMISTRY BTEC 507 3 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MS or PhD
Course Type Elective
Course Coordinator
Prof. Dr. Mustafa Çulha
Instructors Prof. Dr. Mustafa Çulha
Assistants NONE
Internship NONE
Goals
This course is designed to help the students understand the concepts and importance of biochemistry and the fundamental biochemical processes behind living processes.
Content
The life of molecules, structure of carbohydrates and their function, lipids, proteins and nucleic acids, flow of genetic information, enzymes and enzyme kinetics, membrane structure, dynamics and function, introduction of bioenergetics, laws of thermodynamics, ATP and energy, cellular metabolism and fermentation, glycolysis, TCA cycle, oxidative phosphorylation, photosynthesis, amino acid metabolism, nucleic acid metabolism, fatty acid metabolism.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understand the structure of carbohydrates and their function, lipids, proteins and nucleic acids, flow of genetic information, ,
1,2,4 1,2 A,C
2) Understands enzymes and enzyme kinetics, membrane structure, dynamics and function, introduction of bioenergetics, laws of thermodynamics
1,2,4 1,2 A,C
3) Understands ATP and energy, cellular metabolism and fermentation, glycolysis, TCA cycle, oxidative phosphorylation, photosynthesis, amino acid metabolism, nucleic acid metabolism, fatty acid metabolism
1,2,4 1,2 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study
Materials
1 The life of molecules, structure of carbohydrates and their function, and fermentation,
Textbook
2 Lipids, proteins Textbook
3 Nucleic acids Textbook
4 Flow of genetic information Textbook
5 Enzymes and enzyme kinetics, Textbook
6 Membrane structure dynamics and function,
Textbook
7 MIDTERM EXAM I Textbook
8 Introduction of bioenergetics, Textbook
9 Laws of thermodynamics, Textbook
10 Glycolysis, TCA cycle Textbook
11 Oxidative phosphorylation Textbook
12 Photosynthesis Textbook
13 Amino acid metabolism Textbook
14 MIDTERM EXAM II Textbook
15 Nucleic acid metabolism Textbook
16 Fatty acid metabolism Textbook
RECOMMENDED SOURCES
Textbook Biochemistry, Matthews, Van Holde, Ahern, 4th Ed. (International Edition) or similar
Additional Resources Literature
MATERIAL SHARING
Documents Lecture notes are emailed to students as pdf.
Assignments
Exams 2 midterms and 1 final.
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 2 55
Assignment 1 45
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
45
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
55
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, science, and bioengineering.
X
2
The ability of identification and describing the engineering problems in genetics and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
3
To have the ability of the implementation in genetics and bioengineering topics, designing experiments independently, performing experiments, collecting data, analysis of the data and interpretation of the results.
4 The ability of designing a biological system, operation, and process by making use of modern techniques in order to meet up with the desired requirements/products.
X
5 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
6 The ability of producing new, original, and innovative proposals and projects by inquiring investigative, productive, and enterprising capability.
7 The awareness in social, legal, and economical topics with consciousness in professional and ethical responsibilities.
8 The ability of communicating in contemporary and present oneself efficiently in national and international social and scientific arena/platforms.
9 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
10 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 8 112
Mid-term examination 2 3 6
Laboratory - - -
Homework 4 5 20
Project - - -
Final examination 1 3 3
Total Work Load 183
Total Work Load / 25 (h) 7,32
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
BIOTECHNOLOGY LABORATORY PROJECTS
BTEC 510
1-2 1 + 0 3 10
Prerequisites NONE
Language of Instruction
English
Course Level MSc
Course Type Core Course
Course Coordinator
Supervisor of candidate
Instructors Supervisor of candidate
Assistants NONE
Internship NONE
Goals To gain experience about current research areas in Biotechonolgy, Genetics and Bioengineering
Content Experiment topics are given by supervisor of candidate that is already enrolled one of the programme and selected research topic.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
Gains experience about in Biotechnology and Genetic applications .
3,4,8 1,2 B
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Discussion, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1-14 Candidate performs experiment in Laboratory. Latest published
article
RECOMMENDED SOURCES
Textbook -
Additional Resources Latest published articles
MATERIAL SHARING
Documents Reference article is given to candiate by its supervisor
Assignments -
Exams -
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Laboratory 1 100
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
-
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
100
Total 100
COURSE CATEGORY Expertise Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 1 14
Hours for off-the-classroom study (Pre-study, practice)
14 1 14
Mid-term examination - - -
Experiment 14 15 210
Homework - - -
Project - - -
Final examination - - -
Total Work Load 238
Total Work Load / 25 (h) 9.52
ECTS Credit of the Course 10
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
COMPARATIVE PHYSIOLOGY
BTEC511 2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof.Dr.Bayram Yılmaz
Instructors Prof.Dr.BayramYılmaz
Assistants NONE
Internship NONE
Goals To understand the basic physiological principles of the human body and the differences between physiological needs of different organisms.
Content
Introduction to physiology and homeostasis concept; General characteristics of blood and its elements; Cardiovascular system and microcirculation; Respiratory system (Ventilation and perfusion) and Gase exchange (Transportation of O2 and CO2); Renal functions, glomerular filtration, reabsorption and secretion; Acid-base balance in the body; Body Fluids and mechanisms of transportation in the cell membrane level; Membrane action potential and functions of neurons; Muscle physiology (skeletal and smooth); Cardiac cycle and regulation of blood pressure; Blood clotting and hemostasis; Endocrine system
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands the homeostasis concept
2,8,10 1,2 A,C,D
2) Learns physiological systems 2,8,10 1,2 A,C,D
3) Understands the regulation of physiological systems
2,8 1,2 A,C,D
4) Understands the membrane action potential and its physiological importance
2,4 1,2 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Experiment, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction and Explanation of Presentation Topics Textbook
2 Definiton of physiology and homeostasis Textbook
3 General aspects of blood and erythrocytes Textbook
4 Cardiovascular system and microcirculation Textbook
5 Respiratory system (Ventilation and perfusion) and Gase exchange (Transportation of O2 and CO2)
Textbook
6 Renal functions, glomerular filtration, reabsorption and secretion
Textbook
7 Acid-base balance in the body Textbook
8 Body Fluids and mechanisms of transportation in the cell membrane level
Textbook
9 Midterm Textbook
10 Membrane action potential and functions of neurons Textbook
11 Muscle physiology (skeletal and smooth) Textbook
12 Cardiac cycle and regulation of blood pressure Textbook
13 Blood clotting and hemostasis Textbook
14 Endocrine system Textbook
RECOMMENDED SOURCES
Textbook Textbook of medical physiology by Arthur C. Guyton, John E. Hall.
Additional Resources Human Physiology by Stuart Ira Fox.
MATERIAL SHARING
Documents Lecture and presentation notes are given to students
Assignments
Exams 1 Midterm, 2 Presentations (for each student), 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Assignment 2 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 60
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 2 28
Hours for off-the-classroom study (Pre-study, practice)
14 8 112
Mid-term examination 1 5 5
Experiment - - -
Homework 2 20 40
Project - - -
Final examination 1 3 3
Total Work Load 188
Total Work Load / 25 (h) 7.52
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
ECOLOGY BTEC 512 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof. Dr. Metin TURAN
Instructors Prof. Dr. Metin TURAN
Assistants NONE
Internship NONE
Goals
Concepts and theories of ecology (habitat, population, ecosystem) to learn ensure the protection of ecology, sustainable sense, to determine the difference between natural ecosystems and agro-eco system, environmental factors (climatic, edaphic factors, biological and topographical factors) is aimed to teach the impact on the balance.
Content
Physical and biological interactions of organisms with their environment, ecosystem concepts, organisms, environmental requirements, limiting factors, energy cycles, ecosystems, biogeochemical cycles, population and community ecology principles of ecology, plant entomology
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns the basic principles of ecology and ecological factors
2 1,2 A,C, D
2) Learns the definition of ecology, learning of ecosystem and concepts.
4 1,2, A,B, D
3) Understands the physical and biological interactions of organisms with their environment ecology
3 1,2 A,C,D
4) Understands the biogeochemical cycles of ecosystems with energy cycles
5, 9 1,2,3 A,B, D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction and presentation issues Textbook
2 Definition of ecology, the basic principles Textbook
3 Concepts of ecosystem Textbook
4 Physical and biological interactions of organisms with their environment
Textbook
5 Determination of the mutual effects of the organisms with the environment (application)
Laboratory
6 Environmental requirements of organisms Textbook
7 The limiting factors for life and a variety of vital activity of organisms
Textbook
8 Energy cycles, ecosystems, biogeochemical cycles Textbook
9 Midterm
10 Biogeochemical cycles (application) Greenhouse
11 Ecology of population Textbook
12 Ecology of community Textbook
13 Plant entomology Textbook
14 Presentations
RECOMMENDED SOURCES
Textbook Prof. Dr. Metin TURAN, 2006. Agriculturae of Ecological textbook.
Additional Resources
Prof. Dr. Nicolas Lampkin, 1990. Organic FarmingPublished by Farming Pres Books and Videos Wharfedale Road Ipswich IP1 4LG, United Kingdom
Prof. Dr. Sücaatin KIRIMHAN, 2005. Organik Tarım Sistemleri ve Çevre 1. Baskı 350.s Tuhan Kitabevi, Ofset Matbaacılık Tesisleri, Ankara
Hürriyet Taşbaşlı, Bilal Zeytin, 2003. Organik Tarımın Temel İlkeleri Tarım ve Köy İşleri Banklığı, Araştıram ve Planlama Koordinasyon Kurulu Başkanlığı Anakara.
Prasanthrajan, M. and Mahendran, Agrotech, P.P., 2008. A Text Book on Ecology and Environmental Science.
Basu, R.N., and Naya Udyog, 2004. A Compendium of Terms in Ecology and Environment.
Pandey, B.N. and Jyoti, M.K. 2012. Ecology and Environment.
Bhatia, S.C. 2008. Ecology and Sustainable Development, Vols. I and II Atlantic.
Purohit, S.S. and Rajiv Ranjan, 2003. Ecology, Environment and Pollution, Agrobios.
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Midterm, 1 homework, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Laboratory 1 10
Assignment 2 20
Term Project 1 20
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
x
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
x
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 5 70
Mid-term examination 1 6 6
Laboratory 1 5 5
Homework 2 20 40
Project 1 40 40
Final examination 1 8 8
Total Work Load 211
Total Work Load / 25 (h) 8.44
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
INTRODUCTION TO BIOINFORMATICS
BTEC 513 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof.Dr.Işıl Aksan Kurnaz
Instructors Yard. Doç. Işıl Aksan Kurnaz
Assistants NONE
Internship NONE
Goals To obtain an advance understanding of signal transduction pathways and their impact on normal development and disease
Content
Biological sequence (DNA, RNA, protein) analysis:
alignment, scoring matrices, sequence similarity and
distance, motif search; molecular structure prediction: RNA
secondary structure prediction, protein folding, protein
threading, homology modeling; functional genomics and
proteomics: microarray data analysis, transcriptomics, SNP
and exon array analysis, high-throughput protein profiling;
pathway analysis: network modeling, graph theory,
biochemical and metabolic pathway simulations;
bioinformatic tools: introduction to principles, concepts and
uses of online biological databases and software tools used
in the analysis of biological data.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Awareness about basic principles of bioinformatics
1,3,5,8,9,10 1,3,4 A,C
2) Skills to employ basic bioinformatic tools
1,3,5,8,9,10 1,3,4 A,C
3) Awareness about applications of bioinformatics
1,3,5,8,9,10 1,3,4 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to the course and short history Lecture materials and handouts
2
Biological sequence analysis, alignment tools, basic alignment algorithms (Needleman-Wunsch, Smith-Waterman, etc)
Lecture materials and handouts
3 scoring matrices, sequence similarity and distance, motif search
Lecture materials and handouts
4 molecular structure prediction: RNA secondary structure prediction
Lecture materials and handouts
5 molecular structure prediction: protein folding, protein threading,
Lecture materials and handouts
6 molecular structure prediction: homology modeling Lecture materials and handouts
7 functional genomics and proteomics: microarray data analysis, transcriptomics
Lecture materials and handouts
8 SNP and exon array analysis, Lecture materials and handouts
9 high-throughput protein profiling Lecture materials and handouts
10 pathway analysis: network modeling, graph theory, biochemical and metabolic pathway simulations
Lecture materials and handouts
11
bioinformatic tools: introduction to principles, concepts and uses of online biological databases and software tools used in the analysis of biological data (e.g. MINT, DIP, HPRD, GRID, MIPS, KEGG).
Lecture materials and handouts
12 Student presentations Lecture materials and handouts
13 Student presentations Lecture materials and handouts
14 FINAL EXAM Lecture materials and handouts
RECOMMENDED SOURCES
Textbook Research articles; lecture notes; powerpoint presentations
Additional Resources none
MATERIAL SHARING
Documents Exam results are posted on the Exam Results Board, and exam papers are shown to all those students who want to see them.
Assignments
In the second half of the semester, students are each assigned a different contemporary research article to be presented during class. They are also expected tp write a review article following the format of Trends in Genetics.
Exams Student Presentations and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Assignment 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
50
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
50
Total 100
COURSE CATEGORY Expertise/Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 4 56
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination - - -
Laboratory - - -
Homework 2 20 40
Project 1 40 40
Final examination 1 15 15
Total Work Load 207
Total Work Load / 25 (h) 8.28
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
CANCER GENETICS BTEC 514 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Assoc.Prof.Dr. Dilek Telci
Instructors Assoc.Prof.Dr. Dilek Telci
Assistants NONE
Internship NONE
Goals
To ensure that students gain knowledge about the development and biology of cancer with specific emphasis on molecular pathways involved in cancer cell transformation. To discuss the targeted cancer therapies developed for each molecular pathway.
Content
Introduction to molecular biology of cancer with special emphasis
placed on its etiology, development, genetics, treatments and
preventions. Nature of the disease; epidemiology; causes of
cancer (heredity, chemical, radiation, viral and environmental
factors); genetic changes in cancer; oncogenes and tumor
suppressor genes; apoptosis and metastasis. Viral vectors that
cause cancer development.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Comprehends the basic principles of cancer transformation and formation.
8,9 1,2 A,C
2) Understands the importance of oncegenes and tumor supressor genes in cancer development with a mechanistic approach
8 1,2,3 A,C
3) Understand the importance of apoptotic and survival signaling cascades in cancer development.
8 1,2,3 A,C
4) Comprehend the role of metastasis and stem cells in cancer development
8 1,2,3 A,C
5) Learns the cancer immunolgy and the causative microbial agents.
8,9 1,2 A,C
6) Explains the use of classic traditional chemotherapeutic versus targeted drug therapy in cancer treament.
7,8,10 1,2 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to cancer biology; the life of a cancer Textbook
2 DNA structure and stability; mutations vs. repair Textbook
3 Regulation of gene expression Textbook
4 Growth factor signalling and oncogenes, Cell Cycle Textbook
5 Growth Inhibition and tumour suppressor genes Textbook
6 Assignment subject submission; discussion on essay writing
Textbook
7 Midterm 1 Textbook
8 Apoptosis Textbook
9 Paper Discussion (students will talk about the progress in their written assignments)
Textbook
10 Stem cells and differentiation Textbook
11 Metastasis Textbook
12 Infections and inflammation Textbook
13 The cancer industry: drug development and clinical trial design
Textbook
14 The cancer industry: drug development and clinical trial design
Textbook
RECOMMENDED SOURCES
Textbook Molecular Biology of the Cell, Bruce Alberts, Alexander Johnson, Julian Lewis, Martin Raff, Keith Roberts, Peter Walter, 5th edition.
Additional Resources Review Papers
MATERIAL SHARING
Documents Lecture notes
Assignments Subject of homework must be chosen by the student
Exams 1 Midterm and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 40
Assignment 1 60
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3 The ability of identification and describing the engineering problems in biotechnology and
bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 7 98
Mid-term examination 1 3 3
Laboratory - - -
Homework 1 45 45
Project - - -
Final examination 1 3 3
Total Work Load 191
Total Work Load / 25 (h) 7,64
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
INTRODUCTION TO
NANOBIOTECHNOLOGY BTEC 516
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof.Dr.Mustafa Çulha
Instructors Prof.Dr.Mustafa Çulha
Assistants NONE
Internship NONE
Goals Students taking this course realize the importance of nanotechnology and nanobiotechnology concept and the impact of this emerging field on human life.
Content
This course will cover the biotechnology and biomedicine applications of nanotechnology world. The methods used for nanotechnology and nanofabrication, medical and biotechnological applications, future of nanobiotechnology, and its use in diagnostics, nanofabrication, and nanostructures such as gold, silver and carbon nanotubes will be covered in addition to molecular production methods, nano-molecular interactions, molecular transport, self-assembly process, hybrid species through addition of nanomaterials to biological molecules, nanopower, nano-stroll, manipulation and control at the nano scale, nano robots and machines, and other recent applications in the field.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands classes and usage area of biomaterials used in medicine
1,2,3,4 1,2 A,C
2) Learns properties of biomaterials 1,2,3,4 1,2 A,C
3) Explains host reactions to biomaterials and their evaluation
1,2,3,4 1,2 A,C
4) Understands Tissue Engineering 1,2,3,4 1,2 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Nanotechnology/nanobiotechnology concept and a brief history
Various Sources
2 What are the limits to smallness? How small can we make?
Various Sources
3 Some Nanoparticles/Structures: Gold, silver, carbon nanotubes, nanoshells, etc.
Various Sources
4 Nanoparticle Preparation/Production and Chracterization Techniques
Various Sources
5 Imaging Techniques for Nanoworld: SEM, TEM, SPMs:AFM, STM, etc
Various Sources
6 Components of a Living Cell Various Sources
7 Cellular Imaging and Biomedical Imaging Various Sources
8 Nanomedicine Various Sources
9 Nanobiosensing Various Sources
10 Assembly of Nanoparticles on Surfaces and into High Ordered Structures
Various Sources
11 Biological nanomechines Various Sources
12 Behavior of nanomaterials in living systems Various Sources
13 Student Presentations Various Sources
14 Student Presentations Various Sources
RECOMMENDED SOURCES
Textbook Literature and any text book related to the subsjects
Additional Resources Literature
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Midterm, 1 Presentation, 1 Term Paper and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 40
Assignment 2 60
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3 The ability of identification and describing the engineering problems in biotechnology and
X
bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 5 70
Mid-term examination 1 5 5
Laboratory - - -
Homework 3 20 60
Project - - -
Final examination 1 6 6
Total Work Load 183
Total Work Load / 25 (h) 7.32
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
IMMUNOBIOLOGY BTEC 517 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Asisst. Prof. Dr. May Korachi
Instructors Asisst. Prof. Dr. May Korachi
Assistants NONE
Internship NONE
Goals
To gain a basic understanding of the cells of the immune system in both the innate and adaptive immune system. The process of inflammation and how cells interact during disease.
Content
Natural and acquired immunity, immunity through
transplanted cells, activation and differentiation of B-
lymphocytes, the structure and function of an antibody
molecule, antigen-antibody interactions, differentiation
mechanis monoclonal antibodies, the lymphoid system, MHC
restriction, activation and differentiation of the T-lymphocytes,
immune tolerance, immune diseases, sensitivity, fever and
allergy, vaccines, autoimmunity, immune deficiencies and
AIDS.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Develops a sufficient background in the immunology for those students who wish to study more advanced topics
5,8,9,10 1,2 A,C,D
2) Provides familiarity with basic cells of the immune system
5,8,9,10 1,2 A,C,D
3) Provides an understanding of the role of the innate and adaptive immune system
5,8,9,10 1,2 A,C,D
4) Gains an understanding of the inflammatory pathway and role of major cytokines.
5,8,9,10 1,2,4 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to Immunology Slides and handouts
2 The mechanical and chemical defenses of the immune system
Slides and handouts
3 The innate immune system Slides and handouts
4 B cells and antibodies Slides and handouts
5 Miderm I Case study I Slides and handouts
6 The magic of antigen presentation Slides and handouts
7 T cells and cytokines Slides and handouts
8 Lymphoid organs and lymphocyte trafficking Slides and handouts
9 Midterm II Slides and handouts
10 Immunopathology Slides and handouts
11 Cancer and the immune system Slides and handouts
12 Latest research in İmmunogenetics Slides and handouts
13 Important cytokines and pathways presentations Slides and handouts
14 Important cytokines and pathways presentations Slides and handouts
RECOMMENDED SOURCES
Textbook Janeway et al. Immunobiology The Immune System in Health and Disease, 6th edition, 2005.
Additional Resources Lecture slides and handouts
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Case studies and group assignments with presentations.
Exams 1 Midterm, 1 case studyhomework & presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Assignment (case study) 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 1 5 5
Laboratory - - -
Homework 2 20 40
Project (case study) 1 40 40
Final examination 1 6 6
Total Work Load 189
Total Work Load / 25 (h) 7.56
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
MICROBIOLOGICAL ASPECTS OF FOOD SYSTEMS
BTEC 519
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc
Course Type Elective
Course Coordinator
Assoc. Prof. F. Yeşim Ekinci
Instructors Assoc. Prof. F. Yeşim Ekinci
Assistants NONE
Internship NONE
Goals
To provide graduate students in Food Technology, Animal and Food Industries, Microbiology, Biotecnology and related programs with increased understanding of microorganisms that are responsible for foodborne illness, food spoilage and food fermentations and how they impact public health and the food industry
Content
Discuss national and international impacts of heightened food safety concerns on policy and regulations affecting the food chain from production to consumption ;physical, metabolic and genetic characteristics of microorganisms that mediate food fermentations, spoilage or foodborne illness; Apply information gained to real-life problems
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Ensures that the graduate students gain basic food microbiology background at a theoretical level and undestand role of microorganisms in food systems
3,9 1,2,4 A,D
2) Understands role of fermentation microorganisms in Food Industry
3,9 1,2,4 A,D
3) Identifies microbial problems during food processing and to determine critical control points, and to solve them using the most up-to-date techniques and tools
3,9 1,2,4 A,D
4) Identifies food spoilage and pathogens organisms and to solve the problem using the most up-to-date techniques and tools
3,9 1,2,4 A,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction: review of syllabus, course objectives, semester assignments. Food safety issues/legislation
Lecture Notes
2 Review of intrinsic and extrinsic parameters; injury, preservation, inactivation
Lecture Notes
3
Gram-negative foodborne pathogens – issues, syndromes, control, prevention: Escherichia coli O157:H7 and characteristics that make it a successful pathogen; Salmonella, Campylobacter, foodborne vibrios
Lecture Notes
4 Risk assessment; production food safety issues Lecture Notes
5 Gram-positive foodborne pathogens - syndromes,
control, prevention: Listeria monocytogenes, clostridia, etc.
Lecture Notes
6 Non-bacterial foodborne illnesses: Viruses (hepatitis A, Norwalk, rotaviruses); fungal foodborne illness; parasitic: cryptosporidiosis, cyclosporiasis, amebiasis, giardiasis
Lecture Notes
7 Other foodborne illnesses: scombroid, ciguatera, paralytic shellfish poisoning, bovine spongiform encephalopathy (nv Creutzsfeldt-Jakobs disease and prions).
Lecture Notes
8 Rapid detection or identification methodology including immunological and molecular methods
Lecture Notes
9 Other food safety issues: Agricultural biotechnology food products; food allergies
Lecture Notes
10
Control and inactivation technology: Chemical, thermal,
irradiation, hydrostatic pressure, ozonation, high intensity
electric fields, other methods.
Lecture Notes
11 Review of food fermentation principles, fermentative bacteria in foods (emphasizing lactic acid
Lecture Notes
bacteria and propionibacteria)
12
Food fermentations: Cucumber fermentation, cheese manufacture or other dairy fermentations, sourdough bread. Traditional fermented products. Starter cultures. Food fermentation problems and solutions. Biological control of foodborne pathogens and spoilage organisms
Lecture Notes
13 Bacteriocins of lactic and propionic acid bacteria; discovery, purification, genetics, applications.
Lecture Notes
14 Current and future food microbiology issues Lecture Notes
RECOMMENDED SOURCES
Textbook Lecture notes
Additional Resources Readings from web sites, Federal Register, and current literature
MATERIAL SHARING
Documents Readings from web sites, Federal Register, and current literature
Assignments
Exams
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 2 40
Assignenment (Presentations) 5 60
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
30
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
70
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
x
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
x
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 2 14 28
Laboratory - - -
Homework (Presentation) 5 10 50
Project - - -
Final examination 1 14 14
Total Work Load 190
Total Work Load / 25 (h) 7.6
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
GENE EXPRESSION BTEC 521 1-2 3 + 0 3 8
Prerequisites None
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Assoc. Prof. Dr. Ahmet ARMAN
Instructors Assoc. Prof. Dr. Ahmet ARMAN
Assistants NONE
Internship NONE
Goals
To understand genetic code, transcription, traslation and
role of RNA polymerase and transcription factors on
regulation of gene expression in Prokaryotic systems
Content
Genetic code, Transcription ans translation in Prokaryotes
and example of gene regulation in prokaryotes
Course Learning Outcomes
Program Learning Outcome
s
Teaching Methods
Assessment Methods
1) Understands Genetic code 1,8,10 1,2 A,C,D
2) Learns transcription and
translation in prokaryotes 1,2,4,8,10 1,2 A,C,D
3) Learns function of RNA
polymerase and trasncription
factors in gene regulation in
prokaryotic system
1,8,10 1,2 A,C,D
4) Learns gene regulation in
different systems in prokaryotes 1,8,10 1,2 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Genetic code Textbook
2 Transcription in Prokaryotes Textbook
3 Protein Synthesis in prokaryotes Textbook
4 Mutations Textbook
5 Suppressor mutations in prokaryotes Textbook
6 RNA polmerase in Gene regulations Textbook
7 Transcription factors Textbook
8 Promoter analysis in prokaryotes Textbook
9 Midterm Textbook
10 DNA-Protein interactions Textbook
11 Tecniques for determining of gene expression Textbook
12 Example of gene regulation in prokaryotes Textbook
13 Presentation Textbook
14 Presentation
15 Presentation
16 Presentation
RECOMMENDED SOURCES
Textbook Gene Expression and Regulation, Jun MA
Additional Resources
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
x
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6 The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of
professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9
The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 4 56
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 1 5 5
Laboratory - - -
Homework 2 20 40
Project 1 40 40
Final examination 1 6 6
Total Work Load 203
Total Work Load / 25 (h) 8.12
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
PROCESSING OF BIOACTIVE COMPOUNDS FROM NATURAL MATERIALS
BTEC 528
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc Degrees
Course Type Elective
Course Coordinator
Assist. Prof. Özlem Güçlü Üstündağ
Instructors Assist. Prof. Özlem Güçlü Üstündağ
Assistants NONE
Internship NONE
Goals
To provide knowledge on the bioactive compounds in natural materials: their chemistry, characterization, and biological activity To enable understanding of the fundamentals of the extraction techniques used in the processing of bioactive compounds To develop an understanding of the application of these techniques to the processing of bioactive compounds focusing on process design
Content
Bioactive phytochemicals from natural sources: phenolic compounds and polyphenols, major and minor lipid components, essential oils; their processing, characterization, and determination of bioactivity. Extraction techniques for their processing: distillation, solvent extraction, supercritical carbon dioxide extraction, pressurized liquid extraction.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns on bioactive compounds in natural materials
1 1,2 A,C
2) Learns on the extraction techniques used in their processing
1,2,3 1,2 A,C
3) Gets ability to select the suitable extraction technique(s) considering the process objectives, target compounds and available resources
1,3,5,10 1,2 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to bioactive compounds and health effects Lecture notes,
required readings
2 Chemistry of bioactive compounds: phenolics, lipid components, essential oils
Lecture notes, required readings
3 Chemistry of bioactive compounds: phenolics, lipid components, essential oils
Lecture notes, required readings
4 Chemistry of bioactive compounds: phenolics, lipid components, essential oils Presentations
Lecture notes, required readings
5 Characterization and biological activity Midterm 1
Lecture notes, required readings
6 Characterization and biological activity Presentations
Lecture notes, required readings
7 Characterization and biological activity Extraction techniques and their fundamentals
Lecture notes, required readings
8 Extraction techniques and their fundamentals Lecture notes,
required readings
9 Extraction techniques and their fundamentals Lecture notes,
required readings
10 Processing of bioactive compounds: Applications and process design Midterm 2
Lecture notes, required readings
11 Processing of bioactive compounds: Applications and process design, Presentations
Lecture notes, required readings
12 Processing of bioactive compounds: Applications and process design, Presentations
Lecture notes, required readings
13 Processing of bioactive compounds: Applications and process design
Lecture notes, required readings
14 Processing of bioactive compounds: Applications and process design
Lecture notes, required readings
RECOMMENDED SOURCES
Textbook Lecture notes prepared by the instructor.
Additional Resources Selected readings from current literature as required reading material for the course
MATERIAL SHARING
Documents Lecture notes, required reading material
Assignments Information and instructions on presentations and assignments are given to students
Exams Midterms (2) Presentation (1) Final (1)
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Midterms 2 30
Assignments 7 70
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
30
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
70
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 2 15 30
Assignments 7 5 35
Final 1 30 30
Total Work Load 193
Total Work Load / 25 (h) 7.7
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
DRUG DELIVERY SYSTEMS AND INSTRUMENTS
BTEC 532
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Assist.Prof.Dr. Gülengül DUMAN
Instructors Assist.Prof.Dr. Gülengül DUMAN
Assistants NONE
Internship NONE
Goals The aim of this course is to gain students the carriers of novel ‘Drug Delivery Systems (DDS)’.
Content
Introduction to materials and biomaterials as carriers of novel and modern ‘Drug Delivery Systems ‘(DDS). Discuss to design of New Drug Delivery System: Micro-particle system, Composition of Liposomes, Transdermal Drug Delivery Systems, Iontophoresis Applications. Peptide Protein Gene and Drug Delivery Systems. Infusion Pumps and Implantable Drug Delivery systems. Inhaler Drug Delivery Systems. Micro-needle and Microchip Technology.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns biomaterials as carriers of novel ‘Drug Delivery Systems (DDS)’.
1,2,8,10 1,2,4 A,C,D
2) Learns inhaler Devices and Infusion Pumps Micro-particles, Liposomes, Micro-needle and Microchip technology. Implants and inserts. Protein Drug Delivery
1,2,4,10 1,2,4
A,C,D
3) Learns to use theoretical and applied information to understand the applications of DDS.
1,2,4,5,10 1,2,4 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to ‘New Drug Delivery Systems’ benefits, mechanism and materials
Textbook, Course notes, Videos
2 Classification of ‘ New Drug Delivery Systems’ Textbook, Course notes, Videos
3 Ocular Drug Delivery systems Textbook, Course notes, Videos
4 Transdermal Drug Delivery Systems Textbook, Course notes, Videos
5 Iontophoresis Applications
Textbook, Course notes, Videos
6 Micro-needle Technology, Microchip application Textbook, Course notes, Videos
7 Oral Administration Novel systems: Osmotic Pump etc
Textbook, Course notes, Videos
8 Implants: Gliadel Wafer, Duros etc. Textbook, Course notes, Videos
9 Vaginal Administration Route: Intrauterine devices Textbook, Course notes, Videos
10 Nano Technology, Textbook, Course notes, Videos
11 Liposomes, Stealth Liposomes, Textbook, Course notes, Videos
12 Infusion Pumps Textbook, Course notes, Videos
13 Biotechnological Products Overview Textbook, Course notes, Videos
14 Protein Drug Delivery Textbook, Course notes, Videos
RECOMMENDED SOURCES
Textbook Ansel, H.C., Pharmaceutical dosage forms and drug delivery systems. Lea and Febiger, Philadelphia
Additional Resources Video, Notes
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms - -
Laboratory - -
Assignment 1 30
Term Project 1 30
Final 1 40
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 4 56
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination - - -
Laboratory - - -
Homework 1 20 30
Project 1 20 30
Final examination 1 10 20
Total Work Load 192
Total Work Load / 25 (h) 7.68
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
ADVANCED
BIOMATERIALS BTEC 533
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof.Dr.Gamze Torun Köse
Instructors Prof.Dr.Gamze Torun Köse
Assistants NONE
Internship NONE
Goals To understand the importance of biomaterials in Medicine and provide background information about the usage area of biomaterials
Content
Mechanical and Surface Properties of materials, Surface characterization, Classes of materials used in medicine, Host reactions to biomaterials and their evaluation, Tissue Engineering
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands classes and usage area of biomaterials used in medicine
2,4 1,2 A,D
2) Learns properties of biomaterials 2,4 1,2 A,D
3) Explains Host reactions to biomaterials and their evaluation
2 1,2 A,D
4) Understands Tissue Engineering 1,2,4,7 1,2 A,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction and Explanation of Presentation Topics Textbook
2 Properties of biomaterials I Textbook
3 Properties of biomaterials II Textbook
4 Classes of materials used in medicine I Textbook
5 Classes of materials used in medicine II Textbook
6 Host reactions to biomaterials and their evaluation Textbook
7 Biological testing of biomaterials Textbook
8 Degradation of biomaterials in the biological environment Textbook
9 Application of materials in Medicine, Biology and Artificial Organs
Textbook
10 MIDTERM Textbook
11 Tissue Engineering Textbook
12 Presentations Textbook
13 Presentations Textbook
14 Presentations Textbook
RECOMMENDED SOURCES
Textbook Biomaterials Science – Ratner, Hoffman, Schoen, Lemons
Additional Resources Biomaterials: Principles and Applications – J.B.Park and J.D.Bronzino
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6 The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of
professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 1 5 5
Laboratory - - -
Homework 2 20 40
Project 1 40 40
Final examination 1 6 6
Total Work Load 189
Total Work Load / 25 (h) 7.56
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
TRANSGENICS AND GENE THERAPY
BTEC 534 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc Degree
Course Type Elective
Course Coordinator
Assist. Prof. Dr. Hüseyin Çimen
Instructors Assist. Prof. Dr. Hüseyin Çimen
Assistants NONE
Internship NONE
Goals To gain knowledge about gene therapy applications by understanding transgene technology and to ensure the discussin of related ethical issues.
Content
Transgenics and animal cloning, biotechnology, transgenic applications in agricultural and pharmaceutical industries, basic gene therapy techniques, viral vectors and virotherapy, gene therapy in neurological and immune system disorders and sample cases, cancer gene therapy and technical problems, human cloning and ethical issues
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns the recombinant DNA technology and its applications.
2, 8 1, 2 A, D
2) Perceives the gene cloning and its application in gene therapy
2, 8 1, 2 A, D
3) Learns and discusses the production of transgenic organism and related ethical issues
2, 6, 8, 9 1, 2, 3 A, D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction and determination of presentation topics
2 Recombinant DNA technology Textbook
3 Transgenics and use in biotechnology Textbook
4 Gene cloning in animals Textbook
5 Gene cloning in plants Textbook
6 Genetically modified organisms I Textbook
7 Genetically modified organisms II Textbook
8 Genetically modified organisms: Discussion Textbook
9 Midterm Textbook
10 Gene therapy and application examples Textbook
11 Ethics in gene therapy: Discussion Textbook
12 Presentation Textbook
13 Presentation Textbook
14 Presentation Textbook
RECOMMENDED SOURCES
Textbook Anthony J.F. Griffiths v.d., An Introduction to Genetic Analysis, 7th ed., W. H. Freeman and Company
Additional Resources
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
X
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 6 84
Mid-term examination 1 10 10
Laboratory - - -
Homework - - -
Project 1 40 40
Final examination 1 10 10
Total Work Load 186
Total Work Load / 25 (h) 7.44
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
MAMMALIAN TISSUE ENGINEERING
BTEC 535
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof.Dr.Gamze Torun Köse
Instructors Prof.Dr.Gamze Torun Köse
Assistants NONE
Internship NONE
Goals
To understand the basic principles involved in development and fabrication of artificial cellular materials for the replacement of defective tissue
Content
Introduction to Tissue Engineering; Types and organization of cells, Cellular processes and Cell-ECM interaction; Cell and Tissue Culture, Bioreactors; Gene expression, Cell determination; Growth Factors (Cell differentiation); Biomaterials I (Properties, Surface modifications); Biomaterials II (Biodegradable Polymers); Cell-Biomaterial Interactions
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands biomaterials used in Tissue Engineering
2,4 1,2 A,C,D
2) Learns types of cells used in Tissue Engineering
2,4 1,2 A,C,D
3) Understands the effects of growth factors
2,4 1,2 A,C,D
4) Understands industrial aspects of Tissue Engineering
1,2,4,7 1,2 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction and Explanation of Presentation Topics Textbook
2 Organization of cells Textbook
3 Cellular processes and Cell-ECM interaction Textbook
4 Gene expression, cell determination and differentiation Textbook
5 Cell and tissue culture Textbook
6 Tailoring of biomaterials for tissue engineering Textbook
7 Growth factors Textbook
8 Integration with host tissue Textbook
9 Midterm Textbook
10 Scaling up for ex vivo cultivation Textbook
11 Industrial aspects of tissue engineering Textbook
12 Presentations Textbook
13 Presentations Textbook
14 Presentations Textbook
RECOMMENDED SOURCES
Textbook Lanza R.P., Langer R., Chick W.L., Principles of Tissue Engineering, Academic Press
Additional Resources
Yaszemski M.J. etal., Tissue Engineering and Novel Delivery Systems, Marcel Dekker Shi D., Biomaterials and Tissue Engineering, Springer
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 1 5 5
Laboratory - - -
Homework 2 20 40
Project 1 40 40
Final examination 1 6 6
Total Work Load 189
Total Work Load / 25 (h) 7.56
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
Stem Cell BTEC 536
1-2 3 + 0 3 8
Prerequisites None
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Assist. Prof. Dr. Fatih Kocabaş
Instructors Assist. Prof. Dr. Fatih Kocabaş
Assistants NONE
Internship NONE
Goals An introduction to stem cell technologies
Content
The course will cover topics in the basic biology of embryonic,
fetal and adult stem cells; the tools, methods and
experimental protocols needed to study and characterize
stem cells; as well as the application of stem cells to treat
specific human diseases. The course is intended for master’s
degree students in the Biotechnology Program of Yeditepe
University. Students are expected to acquire knowledge and
understanding of the basic biology of embryonic and tissue
specific stem cells, the potential application of stem cell for the
treatment of human diseases and different experimental
approaches used to study and characterize stem cells.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
Students define the basic principles of regeneration
2,3 1,2 A,D
Students interpret on the effect of age, extend of injury, tissue type, species difference on the extent of regeneration
4,8 1,2 A,D
Student explain the methods of analysis of extend of regeneration and cell types involved
2,3 1,2 A,D
Student describe different animals models of use in regeneration
3 1,2,3 A,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Discussion, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 An Overview of stem cell biology Class notes/text
book
2 Overview of basic and translational research of stem cells
Class notes/text book
3 Human embryonic stem cells Class notes/text
book
4 Generation of pluripotent stem cells Class notes/text
book
5 Origin of primordial germ cells and embryonic germ cells, Trophoblast stem cells, Extraembryonic endoderm stem cells.
Class notes/text book
6 Neural stem cells, Hematopoietic stem cells, retinal stem cells, hair follicle stem cells
Class notes/text book
7 Vascular progenitors, skeletal muscle stem cells, cardiac stem cells, kidney stem cells
Class notes/text book
8 Mesenchymal stem cells Class notes/text
book
9 Stem cells in the liver, pancreas, intestine, and teeth Class notes/text
book
10 Tissue engineering with mesenchymal stem cells,Therapeutic potential of neural stem cells
Class notes/text book
11 Preclinical studies using stem cells to treat heart disease, β-cell replacement therapy, Embryonic stem cells in tissue engineering
Class notes/text book
12
Stem cells for the treatment of muscular dystrophy, Regeneration of epidermis from adult keratinocyte stem cells, Application of stem cells to bone regeneration
Class notes/text book
13 Stem cell gene therapy, Viral and non-viral vectors, Genetically corrected stem cells and their use for gene therapy
Class notes/text book
14 Ethics of stem cell research Class notes/text
book
RECOMMENDED SOURCES
Textbook Essentials of Stem Cell Biology, Robert Lanza and Anthony Altala, 2nd Edition.
Additional Resources Class notes, internet resources
MATERIAL SHARING
Documents Lecture notes are shared with the students
Assignments 1 term paper with presentation
Exams 1 midterm and 1 final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 60
Laboratory
Assignment
Project 1 40
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
50
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
50
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
X
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 52
Hours for off-the-classroom study (Pre-study, practice)
14 6 84
Mid-term examination 1 10 10
Laboratory
Homework
Project 1 20 20
Final examination 1 15 15
Total Work Load 181
Total Work Load / 25 (h) 7.24
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
PROTEIN AND PEPTIDE DOSAGE FORMS
BTEC 537
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Assist. Prof. Dr. Gülengül DUMAN
Instructors Assist. Prof. Dr. Gülengül DUMAN
Assistants NONE
Internship NONE
Goals To understand the basic principles involved in amino acids, peptide and proteins for the development of peptide and proteins drug delivery sytems
Content
Introduction to basic structural principles of amino acids, peptide and proteins and their functions; Protein stability and peptide and proteins drug delivery sytems using different polymers or biomaterials.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands basic structural principles of amino acids, peptide and proteins
1,2 1,2,4 A,C,D
2) Learns functions of amino acids, peptide and proteins and their functions;
1,2,4 1,2,4 A,C,D
3) Explains the stability and formulation of Protein stability and peptide and proteins drug delivery sytems
2,4,5,6 1,2,4 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study
Materials
1 Introduction to basic principles involved in amino acids, peptide and proteins
Textbook, Course notes, Videos
2 The basic structural principles of amino acids, peptide and proteins
Textbook, Course notes, Videos
3 The amino acids, peptide and proteins and their functions
Textbook, Course notes, Videos
4 The stability of peptide and proteins
Textbook, Course notes, Videos
5 The stability of peptide and proteins
Textbook, Course notes, Videos
6 The proteins drug delivery systems using different polymers or biomaterials
Textbook, Course notes, Videos
7 The proteins drug delivery systems using different polymers or biomaterials.
Textbook, Course notes, Videos
8 The peptide and proteins drug delivery systems
Textbook, Course notes, Videos
9 The peptide and proteins drug delivery systems
Textbook, Course notes, Videos
10 The peptide and proteins drug delivery systems and device
Textbook, Course notes, Videos
11 Presentations Textbook, Course notes, Videos
12 Presentations Textbook, Course notes, Videos
13 Presentations Textbook, Course notes, Videos
14 Presentations
Textbook, Course notes, Videos
RECOMMENDED SOURCES
Textbook Ansel, H.C., Pharmaceutical dosage forms and drug delivery systems. Lea and Febiger, Philadelphia
Additional Resources Carl Branden John Tooze’ Introduction to Protein Structure’ ,Garland Publishing , London UK.
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Assignment 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
60
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
40
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
X
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 4 56
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examinations - - -
Laboratory - - -
Homework 1 20 30
Project 1 20 30
Final examination 1 10 20
Total Work Load 192
Total Work Load / 25 (h) 7.68
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
NUTRIGENOMICS BTEC 538 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc
Course Type Elective
Course Coordinator
Assoc. Prof. F. Yeşim Ekinci
Instructors Assoc. Prof. F. Yeşim Ekinci
Assistants NONE
Internship NONE
Goals
To provide understanding to graduate students in nutrigenomics, or nutritional genomics area which is a multidisciplinary science that combines information from genetics, nutrition, physiology, pathology, molecular biology, bioinformatics, biocomputation, sociology, ethics, and other disciplines.
Content
The effects of diet on molecular physiology, diet-gene and cancer-diet interactions and complex diseases, individual genetic variations and dietary response, metabolic syndromes, functional food and nutriceuticals, functional nutrigenomics, transcriptomics and proteomics, recent advances and applications in nutrigenomics
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands the basics of genetics, genomics and gene regulation with relation to diet
1,7 1,2,4 A,D
2) Have good understanding of the concepts of molecular nutrition research (signals and signaling pathways, dietary sensors (nuclear receptors), organ sensing, use of animal models)
1,7 1,2,4 A,D
3) Have some understanding of the concepts of Nutrigenetics (genetic susceptibility, SNPs, polygenic (complex) diseases, "personalized" diet);
1,7 1,2,4 A,D
4) Extracts relevant data/information from internet for molecular nutrition research
1,7 1,2,4 A,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1-2
Characteristics of studies in nutrigenomics. Omic technologies. Methodological characteristics, their potential and limitations. Applications. Other useful methodologies
Lecture Notes
3 Microarrays. DNA arrays. Types and preparation. Strategies of experimental design: Hybridisation and processing. Data analysis. Other molecular arrays.
Lecture Notes
4-5 Methods of genomic study. SNPs. Nutrigenetics. Genetic screening tests. Cardiochip, lipochip. Nutritional epigenetics
Lecture Notes
6
Methods of transcriptomic study. General characteristics. Techniques to determine absolute and relative expression. Serial Analysis of Gene Expression (SAGE). Methods based on interference RNAs
Lecture Notes
7 Technical aspects of proteomics. Protein separation methods. Detection methods. Sequence identification methods. Databases
Lecture Notes
8-9
Applications of proteomics. Characteristics of studies in proteomics. Types of proteomics. Techniques for the study of differential gene expression profile. Techniques for the study of post-translational modifications. Techniques for the identification of protein interaction (test with yeast hybrids). Protein arrays.
Lecture Notes
10 Approach to metabonome study. Sample characteristics. Detection, separation and identification techniques. Data analysis. Integration and the concept of systems biology.
Lecture Notes
11-12
Therapeutic applications. Health and illness biomarkers. Characteristics of biomarkers. Analysis of predisposition to nutritional diseases. Personalised medicine. Gene correction. Gene silencing strategies. Hijack of transcription factors
Lecture Notes
13-14 Applications to foods. Functional foods. Pathogen detection. Authentication of foods. Detection of genetically modified organisms
Lecture Notes
RECOMMENDED SOURCES
Textbook Lecture notes
Additional Resources Readings from web sites, Federal Register, and current literature
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments Project assignment sheet containing project subjects and directions about how to prepare presentation is given to students
Exams 2 Midterms, 5 Homeworks and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 2 40
Assignenment (Presentations) 5 60
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
30
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
70
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes Contribution
Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
x
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
x
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 2 14 28
Laboratory - - -
Homework (Presentation) 5 10 50
Project - - -
Final examination 1 14 14
Total Work Load 190
Total Work Load / 25 (h) 7.6
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
PROTEIN CHEMISTRY BTEC 539 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc Degree
Course Type Elective
Course Coordinator
Assist. Prof. Dr. Hüseyin Çimen
Instructors Assist. Prof. Dr. Hüseyin Çimen
Assistants NONE
Internship NONE
Goals To gain knowledge about the synthesis of proteins and their roles in the biomolecular mechanisms, protein engineering techniques and its use in biotechnology.
Content
Theory and techniques of quantitative analysis of biologically important macromolecules; thermodynamic and kinetic principles underlying these separation techniques; introduction to protein structure and function; protein folding and chaperones; protein stability and turnover; proteasome and protein degradation; ubiquitination and sumoylation; enzyme kinetics and action; protein-protein interactions; DNA replication; DNA recombination; transcription and translation.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns the general principles in protein synthesis.
8 1, 2 A, D
2) Perceives the techniques used to study protein structure and function.
3, 8 1, 2 A, D
3) Learns and discusses the use of protein engineering tools in molecular medicine
3, 8 1, 2, 3 A, D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction and determination of presentation topics
2 Protein structure and function Textbook
3 Protein synthesis and kinetics Textbook
4 Protein processing and turnover Textbook
5 Protein expression in organisms Textbook
6 Protein purification Textbook
7 Protein characterization Textbook
8 Methods to determine protein structure Textbook
9 Midterm Textbook
10 Protein engineering in molecular medicine Textbook
11 Protein engineering in molecular medicine: Discussion Textbook
12 Presentation Textbook
13 Presentation Textbook
14 Presentation Textbook
RECOMMENDED SOURCES
Textbook David Whitford, Proteins: Structure and Function, Wiley
Additional Resources
MATERIAL SHARING
Documents Lecture notes are given to students
Assignments
Exams 1 Midterm, 1 Project Presentation and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Expertise/Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 6 84
Mid-term examination 1 10 10
Laboratory - - -
Homework - - -
Project 1 40 40
Final examination 1 10 10
Total Work Load 186
Total Work Load / 25 (h) 7.44
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester L+P Hour
Credits ECTS
METHODS IN SCIENTIFIC RESEARCH
BTEC 550
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Compulsory
Course Coordinator
Asst. Prof. Mayur Tamhane
Instructors Asst. Prof. Mayur Tamhane
Assistants NONE
Internship NONE
Goals
The course trains participants with the knowledge and skills of Methods used to address Scientific Research and representation of scientific contribution towards revealing real world phenomena.
Content
Scientific Research Methodology, Elements of Scientific Research, History of Scientific Philosophy, Guidelines for Empirical Research, Pseudoscience and Authentic Science, Steps of Scientific Method – Research, Problem, Hypothesis, Experiment, Results, Discussion and Conclusion, Writing a Research Paper – Guide, Structure of Research Paper – Title, Abstract, Introduction, Methodology, Results, Discussion, Conclusion, References, Types of Research Study Design – Experimental, Observational, Qualitative, Quantitative, Opinion-based, Semi-experimental, Descriptive, Correlational Studies, Literature Review and its significance, Data Analysis - Statistical Interpretation of raw data, Grants and Research Proposal – accessing database and submission process review
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Acquires the principles of Scientific Philosophy
7,8 1 A
2) Understands structure of Research Hypothesis generation and evaluation
2,6 1,2 A
3) Knows how to conduct ethical research techniques and analysis so as to contribute to scientific knowledge including educational purpose
7,9 1,2 A,C
4) Learns the process of setting up independant research programmes through grantsmanship skills
2,3 1,2,4 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study
Materials
1 Scientific Research Methodology Textbook
2 Elements of Scientific Research Textbook
3 History of Scientific Philosophy Textbook
4 Guidelines for Empirical Research Textbook
5 Pseudoscience and Authentic Science Textbook
6 Steps of Scientific Method – Research, Problem, Hypothesis, Experiment, Results, Discussion and Conclusion - I
Textbook
7 Steps of Scientific Method – Research, Problem, Hypothesis, Experiment, Results, Discussion and Conclusion - II
Textbook
8
Writing a Research Paper – Guide, Structure of Research Paper – Title, Abstract, Introduction, Methodology, Results, Discussion, Conclusion, References - I
Textbook
9
Writing a Research Paper – Guide, Structure of Research Paper – Title, Abstract, Introduction, Methodology, Results, Discussion, Conclusion, References - II
Textbook
10 Types of Research Study Design – Experimental, Observational, Qualitative, Quantitative, Opinion-based, Semi-experimental, Descriptive, Correlational Studies
Textbook
11 Literature Review and its significance Textbook
12 Data Analysis - Statistical Interpretation of raw data Textbook
13 Grants and Research Proposal – accessing database and submission process review - I
Textbook
14 Grants and Research Proposal – accessing database and submission process review - II
Textbook
15 SEMINAR PRESENTATION
16 FINAL EXAM Textbook
RECOMMENDED SOURCES
Textbook 1. How to Write a Research Paper – Year 2011 Shuttleworth M,
Experiment-Resources
Additional Resources 2. Explorable website – www.explorable.com
MATERIAL SHARING
Documents Lecture notes are emailed to students as pdf
Assignments Assignment reports are collected every other week
Exams 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Assignment 6 20
Term Project 1 80
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
50
CONTRIBUTION OF IN-TERM TRAINING TO OVERALL GRADE
50
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, science, and bioengineering.
2
The ability of identification and describing the engineering problems in genetics and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
3
To have the ability of the implementation in genetics and bioengineering topics, designing experiments independently, performing experiments, collecting data, analysis of the data and interpretation of the results.
X
4 The ability of designing a biological system, operation, and process by making use of modern techniques in order to meet up with the desired requirements/products.
5 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
6 The ability of producing new, original, and innovative proposals and projects by inquiring investigative, productive, and enterprising capability.
X
7 The awareness in social, legal, and economical topics with consciousness in professional and ethical responsibilities.
X
8 The ability of communicating in contemporary and present oneself efficiently in national and international social and scientific arena/platforms.
X
9 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
10 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 5 70
Mid-term examination - - -
Laboratory - - -
Homework 6 7 42
Project 1 40 40
Final examination 1 3 3
Total Work Load 197
Total Work Load / 25 (h) 7.88
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
SPECIAL TOPICS: SIGNAL TRANSDUCTION PATHWAYS
BTEC 582 (formerly offered as BTEC 522)
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof.Dr.Işıl Aksan Kurnaz
Instructors Prof.Dr. Işıl Aksan Kurnaz
Assistants NONE
Internship NONE
Goals To obtain an advance understanding of signal transduction pathways and their impact on normal development and disease
Content
Cell-to-cell communication and signaling mechanisms;
signals and receptors, adaptor proteins, kinase and
phosphatases, G protein signaling cascades, small GTP-
binding proteins, phosphatidyl inositol signaling mechanisms-
calcium signaling, signaling scaffolds and signaling between
cascades, examples from signaling mechanisms such as
Wnt, Notch, BMP etc; the role of signaling mechanisms in
development and disease
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands basic types of signals, receptors and signal transduction pathways
1,3,5,8,9,10 1,2,4 A,C
2) Appreciates the importance of signaling in normal development
1,3,5,8,9,10 1,2,4 A,C
3) Puts into context signalling and disease
1,3,5,8,9,10 1,2,4 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction to the course; cell-cell communication and signalling mechanisms
Lecture materials and handouts
2 Signals and receptors Lecture materials and handouts
3 Adaptor proteins
Lecture materials and handouts
4 Kinases and phosphatases; protein kinase A
Lecture materials and handouts
5 G-protein signal cascade; small GTP-binding proteins
Lecture materials and handouts
6 Phosphatidyl inositol signal cascades; calcium signaling
Lecture materials and handouts
7 Lipid signals and nuclear receptors
Lecture materials and handouts
8 Signaling Scaffolds; crosstalk between cascades Student presentations
Lecture materials and handouts
9 Downstream effectors of signaling pathways Student presentations
Lecture materials and handouts
10 Wnt signaling; Notch signaling Student presentations
Lecture materials and handouts
11 BMP signaling Student presentations
Lecture materials and handouts
12 Growth Factor signaling Student presentations
Lecture materials and handouts
13 Signaling in development and disease Student presentations
Lecture materials and handouts
14 FINAL EXAM Lecture materials and handouts
RECOMMENDED SOURCES
Textbook Research articles; lecture notes; powerpoint presentations
Additional Resources none
MATERIAL SHARING
Documents Exam results are posted on the Exam Results Board, and exam papers are shown to all those students who want to see them.
Assignments
In the second half of the semester, students are each assigned a different contemporary research article to be presented during class. They are also expected tp write a review article following the format of Trends in Genetics.
Exams Student Presentations and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms - -
Laboratory - -
Assignment 1 25
Project 1 25
Final 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
50
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
50
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4 The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5 The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 4 56
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination - - -
Laboratory - - -
Homework 2 20 40
Project 1 40 40
Final examination 1 15 15
Total Work Load 207
Total Work Load / 25 (h) 8.28
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
SPECIAL TOPICS: ADULT NEUROGENESIS
BTEC 584 (formerly
offered as BTEC 524)
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof.Dr.Işıl Aksan Kurnaz
Instructors Prof.Dr. Işıl Aksan Kurnaz
Assistants NONE
Internship NONE
Goals To obtain an advance understanding of neurogenesis in the adults
Content
Neural stem cells, neuronal development, neurogenesis in
adult olfactory system, adult hippocampal neurogenesis,
neurogenic and non-neurogenic zones, neurogenesis
research methods, regulation and function of neurogenesis,
applications of neurogenesis in medicine
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Understands adult neurogenesis, neural stem cells, regeneration
1,3,5,8,9,10 1,2,4 A,C
2) Follows recent techniques in the study of neurogenesis
1,3,5,8,9,10 1,2,4 A,C
3) Puts into context neurogenesis and medical applications
1,3,5,8,9,10 1,2,4 A,C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Adult Neurogenesis: Introduction Lecture materials
and handouts
2 Neural Stem Cells Lecture materials and handouts
3 Neuronal Development Lecture materials and handouts
4 Neurogenesis in the adult olfactory system
Lecture materials and handouts
5 Adult hippocampal neurogenesis
Lecture materials and handouts
6 Technical notes Lecture materials and handouts
7 Neurogenic and non-neurogenic regions
Lecture materials and handouts
8 Regulation Lecture materials and handouts
9 Function Lecture materials and handouts
10 Medicine Lecture materials and handouts
11 Student presentations Lecture materials and handouts
12 Student presentations Lecture materials and handouts
13 Student presentations Lecture materials and handouts
14 FINAL EXAM Lecture materials and handouts
RECOMMENDED SOURCES
Textbook
1. Research articles; lecture notes; powerpoint presentations; 2. Adult Neurogenesis; G. Kempermann, OUP; ISBN: 978-0-19-517971-2
Additional Resources none
MATERIAL SHARING
Documents Exam results are posted on the Exam Results Board, and exam papers are shown to all those students who want to see them.
Assignments
In the second half of the semester, students are each assigned a different contemporary research article to be presented during class. They are also expected tp write a review article following the format of Trends in Genetics.
Exams Student Presentations and 1 Final
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Assignment 1 50
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
50
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
50
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 4 56
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination - - -
Laboratory - - -
Homework 2 20 40
Project 1 40 40
Final examination 1 15 15
Total Work Load 207
Total Work Load / 25 (h) 8.28
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
MICROBIAL METABOLISM BTEC 585 1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Prof. Dr. Zeynep Petek ÇAKAR
Instructors Prof. Dr. Zeynep Petek ÇAKAR
Assistants NONE
Internship NONE
Goals
To understand the basic principles of microbial metabolism and gain insight into systems biology applications of microbial metabolism, such as metabolic engineering and evolutionary engineering
Content
Metabolic reactions of microorganisms; microbial energy
metabolism (I): glycolysis and TCA cycle, microbial energy
metabolism (II): respiration, fermentation, regulation of
microbial metabolism, nitrogen metabolism, degradation of
organic compounds, synthesis of cellular products and
constituents, metabolic engineering and evolutionary
engineering
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns basic principles of microbial metabolism and its applications in metabolic and evolutionary engineering
1,2,3,6,7,8,9 1,2 A,D
2) Learns how to present a scientific research article on microbial metabolism
1,5,10 1,2 C,D
3) Makes a detailed literature survey on a microbial metabolism/metabolic engineering topic of interest
1,2,3,8 1,2 C,D
4) Writes a review article in a scientific format and present it in class
1,2,3,5,6,7,10 1,2 A,C,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Metabolic reactions of microorganisms Textbook
2 Microbial energy metabolism (I): Glycolysis and TCA cycle
Textbook, journal articles
3 Microbial energy metabolism (II): respiration, fermentation
Textbook, journal articles
4 Regulation of microbial metabolism Textbook, journal
articles
5 Nitrogen metabolism Textbook, journal
articles
6 Degradation of organic compounds Textbook, journal
articles
7 Synthesis of cellular constituents and products Textbook, journal
articles
8 Metabolic engineering (I) Textbook, journal
articles
9 Metabolic engineering (II) Textbook, journal
articles
10 Evolutionary engineering (I) Textbook, journal
articles
11 Evolutionary engineering (II) Textbook, journal
articles
12 Review Paper Presentations (I) Textbook, journal
articles
13 Review Paper Presentations (II) Textbook, journal
articles
14 Review Paper Presentations (III) Textbook, journal
articles
RECOMMENDED SOURCES
Textbook
Brock Biology of Microorganisms, thirteenth edition, 2011, M.T. Madigan, J.M.Martinko, Pearson
An introduction to metabolic and cellular engineering, second edition, 2012, S. Cortassa, M.A. Aon, A.A. Iglesias, J.C. Aon, D. Lloyd, World Scientific Any biochemistry textbook (e.g. by Stryer, Zubay, Lehninger etc.)
Additional Resources recent scientific research articles published in a SCI-cited biotechnology journal.
MATERIAL SHARING
Documents Lecture notes are provided to students.
Assignments
1 research article presentation in class, a review paper (written) assignment on a microbial metabolism/metabolic engineering topic of interest, presentation of that review paper in class at the end of the term.
Exams 1 midterm exam and 1 Final exam
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 25
Assignment 1 25
Term Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
40
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
60
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
x
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
x
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
x
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
x
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
x
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
x
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
x
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
x
10 The ability to express oneself in English orally and in writing at global platform.
x
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 4 56
Mid-term examination 1 5 5
Laboratory - - -
Homework 1 30 30
Project 1 50 50
Final examination 1 6 6
Total Work Load 189
Total Work Load / 25 (h) 7.56
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour
Credits ECTS
SELECTED TOPICS: APPLICATIONS OF BIOSTATISTICS FOR RESEARCH
BTEC 586
1-2 3 + 0 3 8
Prerequisites NONE
Language of Instruction
English
Course Level MSc and PhD Degrees
Course Type Elective
Course Coordinator
Asst. Prof. Dr. Esin Öztürk Işık
Instructors Asst. Prof. Dr. Esin Öztürk Işık
Assistants NONE
Internship NONE
Goals To understand the basic principles of biostatistics, statistical procedures for different kinds of hypothesis testing, and their applications for research in biotechnology
Content
Defining appropriate statistical methods for biological and genetics research studies, hypothesis testing, the inner dynamics of given statistical methods for understanding their logic, input and output, ANOVA, the difference between the applications of paired and unpaired t-tests, and other statistical analysis methods such as Kruskal Wallis statistic, Spearman rank correlation, Wilcoxon signed rank test, Log-rank test, Chi-square test for analysis of contingency tables, and survival analysis.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
1) Learns about different biostatistical analysis methods
1 1,2,3 A,C
2) Solves homework questions 1 1,2,3 A,D
3) Understands ethical responsibilities of biotechnology employees in healthcare
6,7 1,2,3 A
4) Awares of importance of biostatistics in healthcare
9 1,2,3 A,C
5) Prepares project and to make presentation
1,5,8,10 1,2,3 A,D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Laboratory, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1 Introduction, Sampling, Experimentation, Measurement Textbook & Power
point slides
2 Descriptive Statistics Textbook & Power
point slides
3 Analysis of Variance Textbook & Power
point slides
4 t-test Textbook & Power
point slides
5 Multiple Comparisons Textbook & Power
point slides
6 Rates and Proportions (z-test, Chi-square test) Textbook & Power
point slides
7 Power and Sample Size Textbook & Power
point slides
8 Regression and Correlation Textbook & Power
point slides
9 Repeated Measures(paired t-test) Textbook & Power
point slides
10 Repeated measures (Repeated measures ANOVA) Textbook & Power
point slides
11 Nonparametric Methods Textbook & Power
point slides
12 Survival Analysis Textbook & Power
point slides
13 Project Presentations -
14 Project Presentations -
RECOMMENDED SOURCES
Textbook Primer of Biostatistics (6th ed.) By Stanton A. Glantz (McGraw-Hill)- 2005
Additional Resources -
MATERIAL SHARING
Documents Lecture notes
Assignments -
Exams -
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms 1 40
Assignment 10 40
Term Project 1 20
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
30
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
70
Total 100
COURSE CATEGORY Field Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
X
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Including the exam week: 14x Total course hours)
14 3 42
Hours for off-the-classroom study (Pre-study, practice)
14 2 28
Mid-term examination 1 15 15
Laboratory - - -
Homework 10 5 50
Final examination 1 15 15
Project 1 40 40
Total Work Load 190
Total Work Load / 25 (h) 7.6
ECTS Credit of the Course 8
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
MSc SEMINAR BTEC 590 1-2 1 + 0 1 1
Prerequisites NONE
Language of Instruction
English
Course Level MSc
Course Type Core Course
Course Coordinator
Assoc.Prof.Dilek Telci
Instructors Assoc.Prof.Dilek Telci
Assistants NONE
Internship NONE
Goals To gain knowledge about current research areas in Biotechonolgy and R&D topics in Industrial biotechnology.
Content
Seminars given by faculty members or guest speakers on recent developments in the areas of genetics, molecular biology, bioengineering, bioinformatics, as well as by students on their own research topics, with the ultimate purpose of expanding the students’ horizons in these areas as well as providing them with theoretical and practical skills on how to make a presentation in conferences and meetings.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
Gains information about current research topics in Biotechnology and learns about the recent R&D subjects in Industrial biotechnology. .
7,8,9 1,2 C
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Discussion, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1-14 Researchers or R&D scientist from Industrial Biotechnology are invited to give one-hour presentations.
Textbook
RECOMMENDED SOURCES
Textbook -
Additional Resources Notes taken by students in one-hour presentations given by researchers or R&D scientist from Industrial Biotechnology.
MATERIAL SHARING
Documents Notes taken by students in one-hour presentations given by researchers or R&D scientist from Industrial Biotechnology.
Assignments Studenst are asked to prepare an assigments on a presenation subject which they have found interesting.
Exams
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Assignment 1 100
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
-
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
100
Total 100
COURSE CATEGORY Expertise Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes
Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
2
The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 1 14
Hours for off-the-classroom study (Pre-study, practice)
14 2 28
Mid-term examination - - -
Experiment - - -
Homework 1 3 3
Project - - -
Final examination - - -
Total Work Load 45
Total Work Load / 25 (h) 1.8
ECTS Credit of the Course 2
COURSE INFORMATON
Course Title Code Semester T+U Hour Credits ECTS
MSc. Thesis BTEC 600 3-4 1 + 0 0 30
Prerequisites
Language of Instruction
English
Course Level PhD
Course Type Core Course
Course Coordinator
Prof. Dr. Fikrettin Şahin
Instructors Thesis advisor
Assistants NONE
Internship NONE
Goals
To accomplish the new and novel study in biotechnology area in
whole perspective. To realize the necessities of the study and
learn the knowledge of the theme.
Content
To review the updated articles, interpret them, to decide the
appropriate route of study and perform the necessary
experiments to gather all data and lastly make decision and
comment about results.
Course Learning Outcomes Program Learning
Outcomes
Teaching Methods
Assessment Methods
To gain knowledge and experience via experiments and interpret the data during thesis study
1,2,3,4,5,6,7,8,9 2, 3 B, D
Teaching Methods:
1: Lecture, 2: Question-Answer, 3: Discussion, 4: Case-study
Assessment Methods:
A: Testing, B: Laboratory, C: Homework, D: Project
COURSE CONTENT
Week Topics Study Materials
1-14 To use the knowledge from interpretation of experiments in thesis study
Books, Review and Research articles
RECOMMENDED SOURCES
Textbook -
Additional Resources -
MATERIAL SHARING
Documents
Assignments
Exams
ASSESSMENT
IN-TERM STUDIES NUMBER PERCENTAGE
Mid-terms
Experiment 14 50
Assignment
Project 1 50
Total 100
CONTRIBUTION OF FINAL EXAMINATION TO OVERALL GRADE
100
CONTRIBUTION OF IN-TERM STUDIES TO OVERALL GRADE
0
Total 100
COURSE CATEGORY Expertise Courses
COURSE'S CONTRIBUTION TO PROGRAM
No Program Learning Outcomes Contribution Level
1 2 3 4 5
1 Advanced level knowledge of mathematics, statistics, and bioengineering.
X
2 The ability of designing biological systems, analysis or process in order to meet up with the desired requirements/products.
X
3
The ability of identification and describing the engineering problems in biotechnology and bioengineering and proposing solution by making use of most up-to-date techniques and instruments.
X
4
The ability of working efficiently in interdisciplinary teams and being definitive in decision making process by taking responsibilities.
X
5
The ability of developing efficient communicating skills in the field of biotechnology and presenting oneself efficiently in social and scientific arena/platforms.
X
6
The ability to have occupational ethics and social responsibilities, intellectual conscious in areas of professional conversations, declarations, and applications.
X
7 The ability of perceiving occupational ethics and their implications on the society at legal and economic level.
X
8 The ability of retaining the necessity of lifelong education, learning, and improvement and gain the skills to achieve this.
X
9 The ability of perceiving the impact of bioengineering, genetics, and biotechnology products and solutions at the environmental, global and social levels.
X
10 The ability to express oneself in English orally and in writing at global platform.
X
ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
Activities Quantity Duration (Hour)
Total Workload
(Hour)
Course Duration (Excluding the exam weeks: 14x Total course hours)
14 53 742
Hours for off-the-classroom study (Pre-study, practice)
Mid-term examination
Experiment
Homework
Project
Final examination 1 3 3
Total Work Load 745
Total Work Load / 25 (h) 29.8
ECTS Credit of the Course 30
Assesment Of Courses According To The Learning Outcomes For Biotechnology MSc Program
BTEC PO 1 PO 2 PO 3 PO 4 PO 5 PO 6 PO 7 PO 8 PO 9 PO 10
501 4 2 4 4 2 5 504 5 4 5 5 5 505 4 5 5 4 4
506 4 5 5 5 507 5 5 5 510 5 5 5 511 3 5 5 2
512 4 4 3 5 5 513 5 3 5 5 5 5
514 5 5 5 5
516 3 5 5 5 517 5 5 4 4
519 4 4 521 5 4 4 5 4
528 4 5 5 5 5
532 3 5 4 5 4 4
533 4 2 5 4 534 4 3 3 5 535 4 5 5 5 537 5 4 5 4 4 538 5 4 539 5 3 550 5 5 5 5 5 4 582 5 3 5 5 5 5
584 5 3 5 5 5 5
585 2 3 5 5 5 5 5 5 5
586 5 4 3 3 4 4 4
590 5 5 5 600 5 5 3 3 4 5 5 5 5 4