DEPARTMENT OF MOLECULAR BIOLOGY AND GENETICS (ENGLISH)
Bachelor	TR-NQF-HE: Level 6	QF-EHEA: First Cycle	EQF-LLL: Level 6

Ders Genel Tanıtım Bilgileri

Course Code:

1414002004

Ders İsmi:

Systems Biology

Ders Yarıyılı:

Spring

Ders Kredileri:

Theoretical	Practical	Credit	ECTS
2	2	3	5

Language of instruction:

Ders Koşulu:

Ders İş Deneyimini Gerektiriyor mu?:

Type of course:

Department Elective

Course Level:

Bachelor

TR-NQF-HE:6. Master`s Degree

QF-EHEA:First Cycle

EQF-LLL:6. Master`s Degree

Mode of Delivery:

Face to face

Course Coordinator :

Prof. Dr. Meliha Burcu IRMAK YAZICIOĞLU

Course Lecturer(s):

Course Assistants:

Dersin Amaç ve İçeriği

Course Objectives:	The goal of this course is to provide students with an overview of current methods, applications, analysis approaches, and results in different fields of systems biology.
Course Content:	Omics data acquisition and interpretation. Large-scale methods used in systems biology research and their basic data types. Different systems biology approaches in their advantages and disadvantages. Network Biology. Topological parameters. Practical sessions based on bioinformatic tools examples of the latest research publications that mark the frontier of the field of systems biology.

Learning Outcomes

The students who have succeeded in this course;

Learning Outcomes

1 - Knowledge
Theoretical - Conceptual
1) Students will gain the ability to collect and interpret Omik data
2 - Skills
Cognitive - Practical
3 - Competences
Communication and Social Competence
Learning Competence
1) Learn about large-scale methods and basic data types used in systems biology research.
Field Specific Competence
1) Students will learn different systems biology approaches according to their advantages and disadvantages.
Competence to Work Independently and Take Responsibility

Ders Akış Planı

Week	Subject	Related Preparation
1)	Introduction to Cell Biology	Textbook and Lecture notes
2)	Biomolecules; Genes, Proteins and Metabolites	Textbook and Lecture notes
3)	Fundamentals of Systems Biology	Textbook and Lecture notes
4)	Omics Data-Genomics	Textbook and Lecture notes
5)	Omics Data - Transcriptomics	Textbook and Lecture notes
6)	Omics Data - Proteomics	Textbook and Lecture notes
7)	Omics Data - Metabolomics	Textbook and Lecture notes
8)	Midterm
9)	Network Biology-1	Textbook and Lecture notes
10)	Network Biology-2	Textbook and Lecture notes
11)	Dataset screening and determining differentially expressed genes	Textbook and Lecture notes
12)	Reconstruction of protein-protein interaction networks	Textbook and Lecture notes
13)	Functional enrichment analysis	Textbook and Lecture notes
14)	Drug repositioning	Textbook and Lecture notes
15)	Final Exam

Sources

Course Notes / Textbooks:	Systems Biology in Practive, Klipp-Herwig-Kowald-Wierling-Lehrach, Wiley, 2005; Uri Alon, “Introduction to Systems Biology: Design Principles of Biological Circuits,” CRC Press, 2006 Systems Biology: A Textbook, 2nd Edition Edda Klipp, Wolfram Liebermeister, Christoph Wierling, Axel Kowald
References:	Systems Biology in Practive, Klipp-Herwig-Kowald-Wierling-Lehrach, Wiley, 2005; Uri Alon, “Introduction to Systems Biology: Design Principles of Biological Circuits,” CRC Press, 2006 Systems Biology: A Textbook, 2nd Edition Edda Klipp, Wolfram Liebermeister, Christoph Wierling, Axel Kowald

Ders - Program Öğrenme Kazanım İlişkisi

Ders Öğrenme Kazanımları	1	2	3
Program Outcomes
1) PÇ 1.1) To have sufficient knowledge required by the field of molecular biology and genetics
2) PO 1.2) To be able to use the theoretical knowledge required by the field of molecular biology and genetics
3) PO 1.3) To be able to apply the skills required by the field of molecular biology and genetics in the field
4) PO 2.1) To be able to identify, define and interpret the problems in the field of Molecular Biology and Genetics
5) PO 2.2) To be able to select appropriate analysis and modeling methods to solve problems in the field of Molecular Biology and Genetics
6) PO 2.3) To be able to apply appropriate analysis and modeling methods to solve problems in the field of Molecular Biology and Genetics
7) PO 3.1) To be able to understand and interpret any process, event, phenomenon, equipment or product
8) PO 3.2) To be able to solve the problems encountered with appropriate and contemporary methods
9) PO 4.) To be able to show interest in different disciplines outside the field for personal and professional development
10) PO 5.1) To be able to select and use modern tools necessary for Molecular Biology and Genetics applications
11) PO 5.2)To be able to use information technologies effectively for Molecular Biology and Genetics applications
12) PO 6) To be able to design, experiment, field study, data collection, data analysis, reporting, archiving, text solving and/or interpretation in the field of Molecular Biology and Genetics
13) PO 7) To be able to take responsibility as an individual and a team member, to produce solutions and to communicate well in unexpected complex situations that may be encountered in applications in the field of Molecular Biology and Genetics.
14) PO 8.1) To be able to communicate effectively both orally and in writing in Turkish in order to plan academic studies in the field of Molecular Biology and Genetics and to carry out them independently or jointly with stakeholders
15) PO 8.2) To be able to communicate orally and in writing in at least one foreign language in order to plan academic studies in the field of Molecular Biology and Genetics and to conduct them independently or jointly with stakeholders
16) PO 9) To have the awareness of the necessity of lifelong learning, to have the ability to access information, to follow developments in science and technology and to have the ability to constantly renew oneself.
17) PO 10) To have social, scientific, ethical values and awareness of protecting these values in the stages of collecting, interpreting, announcing and applying data related to the field of Molecular Biology and Genetics.
18) PO 11) To be able to comprehend the universal and social effects of Molecular Biology and Genetics applications (environmental problems, economy, sustainability, etc.) and legal aspects

Ders - Öğrenme Kazanımı İlişkisi

No Effect	1 Lowest	2 Low	3 Average	4 High	5 Highest

	Program Outcomes	Level of Contribution
1)	PÇ 1.1) To have sufficient knowledge required by the field of molecular biology and genetics
2)	PO 1.2) To be able to use the theoretical knowledge required by the field of molecular biology and genetics
3)	PO 1.3) To be able to apply the skills required by the field of molecular biology and genetics in the field
4)	PO 2.1) To be able to identify, define and interpret the problems in the field of Molecular Biology and Genetics
5)	PO 2.2) To be able to select appropriate analysis and modeling methods to solve problems in the field of Molecular Biology and Genetics
6)	PO 2.3) To be able to apply appropriate analysis and modeling methods to solve problems in the field of Molecular Biology and Genetics
7)	PO 3.1) To be able to understand and interpret any process, event, phenomenon, equipment or product
8)	PO 3.2) To be able to solve the problems encountered with appropriate and contemporary methods
9)	PO 4.) To be able to show interest in different disciplines outside the field for personal and professional development
10)	PO 5.1) To be able to select and use modern tools necessary for Molecular Biology and Genetics applications
11)	PO 5.2)To be able to use information technologies effectively for Molecular Biology and Genetics applications
12)	PO 6) To be able to design, experiment, field study, data collection, data analysis, reporting, archiving, text solving and/or interpretation in the field of Molecular Biology and Genetics
13)	PO 7) To be able to take responsibility as an individual and a team member, to produce solutions and to communicate well in unexpected complex situations that may be encountered in applications in the field of Molecular Biology and Genetics.
14)	PO 8.1) To be able to communicate effectively both orally and in writing in Turkish in order to plan academic studies in the field of Molecular Biology and Genetics and to carry out them independently or jointly with stakeholders
15)	PO 8.2) To be able to communicate orally and in writing in at least one foreign language in order to plan academic studies in the field of Molecular Biology and Genetics and to conduct them independently or jointly with stakeholders
16)	PO 9) To have the awareness of the necessity of lifelong learning, to have the ability to access information, to follow developments in science and technology and to have the ability to constantly renew oneself.
17)	PO 10) To have social, scientific, ethical values and awareness of protecting these values in the stages of collecting, interpreting, announcing and applying data related to the field of Molecular Biology and Genetics.
18)	PO 11) To be able to comprehend the universal and social effects of Molecular Biology and Genetics applications (environmental problems, economy, sustainability, etc.) and legal aspects

Öğrenme Etkinliği ve Öğretme Yöntemleri

Alan Çalışması
Anlatım
Course
Okuma
Homework

Ölçme ve Değerlendirme Yöntemleri ve Kriterleri

Yazılı Sınav (Açık uçlu sorular, çoktan seçmeli, doğru yanlış, eşleştirme, boşluk doldurma, sıralama)
Homework
Sunum

Assessment & Grading

Semester Requirements	Number of Activities	Level of Contribution
Quizzes	5	% 10
Midterms	1	% 30
Semester Final Exam	1	% 60
total		% 100
PERCENTAGE OF SEMESTER WORK		% 40
PERCENTAGE OF FINAL WORK		% 60
total		% 100

İş Yükü ve AKTS Kredisi Hesaplaması

Activities	Number of Activities	Duration (Hours)	Workload
Course Hours	13	3	39
Study Hours Out of Class	13	4	52
Homework Assignments	10	4	40
Quizzes	7	2	14
Midterms	1	2	2
Final	1	2	2
Total Workload			149