GBE 407 | Course Introduction and Application Information - Department of Genetics and Bioengineering

Course Name

Genomics and Proteomics

Code	Semester	Theory (hour/week)	Application/Lab (hour/week)	Local Credits	ECTS
GBE 407	Fall/Spring	2	2	3	6

Prerequisites	None
Course Language	English
Course Type	Elective
Course Level	First Cycle
Mode of Delivery	-
Teaching Methods and Techniques of the Course	Discussion Group Work Q&A Lecture / Presentation
National Occupation Classification	-
Course Coordinator	Doç. Dr. Osman DOLUCA
Course Lecturer(s)	Doç. Dr. Osman DOLUCA
Assistant(s)	-

Course Objectives

The aim of this course is to introduce the methods which are used in protein biochemistry, bioinformatics and functional genomics In the scope of this lecture, responses of eukaryotic organisms to biotic and abiotic stress in all genome levels will be analyzed and the importance of personalized drug applications will be discussed.

Learning Outcomes

#	Content	PC Sub	* Contribution Level
#	Content	PC Sub	1	2	3	4	5
1	Identify genomic structures in various species.
2	Explain traditional and modern genomic techniques.
3	Apply comparative genomic applications.
4	Utilize proteomic approaches which are used in investigation of protein structure and function.
5	Discuss application areas of genomics and proteomics.

Course Description

Definition and application areas of genomics and proteomics approaches, structural genomics, functional genomics and usage of comparative genomic, analysis of genomes of livings, proteomic analyses. Recombinant DNA methods, genetically modified plants and animals and their use will be introduced.

Course Category	Core Courses
	Major Area Courses	X
	Supportive Courses
	Media and Management Skills Courses
	Transferable Skill Courses

Week	Subjects	Related Preparation	Learning Outcome
1	Introduction to Genomics	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 1
2	Human Genome Project	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 2
3	Genomes of model organisms and vectors	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 3,4
4	DNA and Genome sequencing methods	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 5,7
5	Genome mapping	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 6
6	Genome assembly and annotation	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 8
7	Functional Genomics	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 9
8	Midterm I
9	Introduction to proteomics	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 10
10	Two-dimensional Gel Electrophoresis	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 11
11	Midterm II
12	Mass spectroscopy	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 12
13	Protein identification by peptide mass fingerprinting	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 13
14	Protein sequencing techniques	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7. Chapter 14
15	Review of the course
16	Final exam

Course Notes/Textbooks	Concepts and Techniques in Genomics and Proteomics, Nachimuthu Saraswathy, Ponnusamy Ramalingam, Elsevier, 2011, 978-1-907568-10-7
Suggested Readings/Materials

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

Weighting of Semester Activities on the Final Grade	3	60
Weighting of End-of-Semester Activities on the Final Grade	1	40
Total

Semester Activities	Number	Duration (Hours)	Workload
Theoretical Course Hours (Including exam week: 16 x total hours)	16	2	32
Laboratory / Application Hours (Including exam week: '.16.' x total hours)	16	2	32
Study Hours Out of Class	14	2	28
Field Work			0
Quizzes / Studio Critiques	1	20	20
Portfolio			0
Homework / Assignments			0
Presentation / Jury			0
Project	1	24	24
Seminar / Workshop			0
Oral Exam			0
Midterms	1	22	22
Final Exam	1	22	22
		Total	180

#	PC Sub	Program Competencies/Outcomes	* Contribution Level
#	PC Sub	Program Competencies/Outcomes	1	2	3	4	5
1	To have adequate knowledge in Mathematics, Science and Genetics and Bioengineering; to be able to use theoretical and applied information in these areas on complex engineering problems.		-	-	-	-	-
2	To be able to identify, define, formulate, and solve complex Genetics and Bioengineering problems; to be able to select and apply proper analysis and modeling methods for this purpose.		-	-	X	-	-
3	To be able to design a complex system, process, device or product under realistic constraints and conditions, in such a way as to meet the requirements; to be able to apply modern design methods for this purpose.		-	-	-	-	-
4	To be able to devise, select, and use modern techniques and tools needed for analysis and solution of complex problems in Genetics and Bioengineering applications; to be able to use information technologies effectively.		-	-	X	-	-
5	To be able to design and conduct experiments, gather data, analyze and interpret results for investigating complex engineering problems or Genetics and Bioengineering research topics.		-	-	-	-	-
6	To be able to work efficiently in Genetics and Bioengineering disciplinary and multi-disciplinary teams; to be able to work individually.		-	-	X	-	-
7	To be able to communicate effectively in Turkish, both orally and in writing; to be able to author and comprehend written reports, to be able to prepare design and implementation reports, to present effectively, to be able to give and receive clear and comprehensible instructions.		-	-	-	-	-
8	To have knowledge about global and social impact of Genetics and Bioengineering practices on health, environment, and safety; to have knowledge about contemporary issues as they pertain to engineering; to be aware of the legal ramifications of Genetics and Bioengineering solutions.		-	-	-	-	-
9	To be aware of ethical behavior, professional and ethical responsibility; to have knowledge about standards utilized in Genetics and Bioengineering applications.		-	-	-	-	-
10	To have knowledge about industrial practices such as project management, risk management, and change management; to have awareness of entrepreneurship and innovation; to have knowledge about sustainable development.		-	-	-	-	-
11	To be able to collect data in the area of Genetics and Bioengineering, and to be able to communicate with colleagues in a foreign language.		-	-	-	-	-
12	To be able to speak a second foreign language at a medium level of fluency efficiently.		-	-	-	-	-
13	To recognize the need for lifelong learning; to be able to access information, to be able to stay current with developments in science and technology; to be able to relate the knowledge accumulated throughout the human history to Genetics and Bioengineering.		-	-	-	-	-