Genetics and Bioengineering (English)
Bachelor	TR-NQF-HE: Level 6	QF-EHEA: First Cycle	EQF-LLL: Level 6

General course introduction information

Course Code:

GBE424

Course Name:

Molecular Signalling Pathways and Cancer

Course Semester:

Fall

Course Credits:

Theoretical	Practical	Credit	ECTS
3	0	3	7

Language of instruction:

Course Requisites:

Does the Course Require Work Experience?:

Type of course:

Compulsory

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 :

Dr.Öğr.Üyesi METİN YAZAR

Course Lecturer(s):

Dr.Öğr.Üyesi METİN YAZAR

Course Assistants:

Course Objective and Content

Course Objectives:

This course is designated to provide the introduction knowledge to understand how thousands of diverse signaling proteins interact with each other in vast interconnected networks. The aim of the lecture also is discussing the common currencies of cellular information processing and the core components of the signaling machinery.

Secondly, this course aims to provide a comprehensive overview of molecular and genetic mechanisms of cancer biology.
At the end of this course the student will be able to:
• Imagine the basics of signal transduction.
• Discuss the signaling pathways in which signaling proteins interact with each other in vast interconnected networks.
• Describe the cellular effects of signaling molecules.
• Describe the nature of cancer
• Comprehend the maintenance of genomic integrity and development of cancer
• Recognize the underlying molecular biology and genetics in anti-cancer therapies

Course Content:

.Voltage gated and ligand gated channels
.Phospholipase C and Calcium
.Serine-Threonine Kinase Receptors
.Tyrosine Kinase Receptors and Phosphotases
. G Proteins and Secondary Messengers
.Reactive Oxygen Species and Signal Transduction
.Differences between necrosis, apoptosis and autophagy
.Nature of cancer
.Tumor viruses
.Tumor suppressor genes and proteins
•p53 and apoptosis: master guardian and executioner
maintenance of genomic integrity and the development of cancer
•Invasion and metastasis
•Tumor immunology
•Treatment of cancer

Learning Outcomes

The students who have succeeded in this course;

Learning Outcomes

1 - Knowledge
Theoretical - Conceptual
2 - Skills
Cognitive - Practical
3 - Competences
Communication and Social Competence
Learning Competence
Field Specific Competence
1) At the end of this course the student will be able to know the basics of signal transduction and cancer.
Competence to Work Independently and Take Responsibility

Lesson Plan

Week	Subject	Related Preparation
1)	• Syllabus • Introduction of signal transduction • Voltage gated channels and their ligands • Cellular effects of voltage gated channels • Ligand gated channels and their receptors • Cellular effects of ligand gated channels	-
2)	• Phospholipase C and its structure • Activation of phospholipase C and its ligands • Cellular effects of phospholipase C • Inositol 1,4,5-trisphosphate (IP3) and calcium release	-
3)	• Molecular structure of serine threonine kinase receptors (STKR) and subclasses • Ligands of STKRs • Cellular effects of STKRs	-
4)	• The structure of Receptor Tyrosine Kinase (RTK) • Activation of RTKs • Ligands of RTKs • The balance between RTKs and phosphatases • Cellular effects of RTK activation	-
5)	• Structure and subunits of G proteins • G protein coupled receptors • Activation of G proteins • Secondary messengers	-
6)	• Reactive oxygen species (ROS) production pathways • Cellular conditions producing ROS • Cellular effect of ROS • Signal transduction triggered by ROS	-
7)	• Midterm I	-
8)	• Endoplasmic reticulum stress and proteolysis • Necrosis and signaling pathways trigger necrosis • Apoptosis and signaling pathways trigger apoptosis • Autophagy and signaling pathways trigger apoptosis • Differences between necrosis, apoptosis and autophagy	-
9)	• The nature of cancer • Which tissues do tumors arise from? • Tumor types • Chemical agents, mutagens, carcinogens • Monoclonal growth of tumors • Frequency of cancer in different populations	-
10)	• Rous Sarcoma Virus (RSV) • Integration of retroviral genomes into the chromosomes of infected cells • Genomes carrying large group of proto-onco genes and their activation • Activation of oncogenes by a diverse array of structural changes	-
11)	• Functions of tumor suppressor genes and proteins • Loss-of-heterozygosity events • The interference of functions of normal p53 by mutant p53 • Signals that cause p53 induction • MDM2 and ARF battle over the fate of p53	-
12)	• Resistance of human cells to immortalization and transformation • Mechanisms that minimize the accumulation of mutant stem cells • The effects of endogenous biochemical processes, exogenous mutagens and their metabolites on genome of the cell • The effects of inherited defects in DNA repair • Biological steps resulting in the travel of cancer cells from a primary tumor to a site of potential metastasis	-
13)	• Midterm II	-
14)	• Immune recognition of tumors • How do cancer cells evade immune detection? • The development and clinical use of effective therapies • Attractive targets for anti-cancer therapy	-
15)	Final Exam	-

Sources

Course Notes / Textbooks:	• Cellular Signal Processing: An Introduction to the Molecular Mechanisms of Signal Transduction by Friedrich Marks, Ursula Klingmüller, Karin Müller-Decker ISBN-10: 0815342152 ISBN-13: 978-0815342151 • The Biology of Cancer by Robert A. Weinberg – Garland Science, 2007 ISBN: 9780815342205
References:	• Cellular Signal Processing: An Introduction to the Molecular Mechanisms of Signal Transduction by Friedrich Marks, Ursula Klingmüller, Karin Müller-Decker ISBN-10: 0815342152 ISBN-13: 978-0815342151 • The Biology of Cancer by Robert A. Weinberg – Garland Science, 2007 ISBN: 9780815342205

Course-Program Learning Outcome Relationship

Learning Outcomes	1
Program Outcomes
1) Sufficient knowledge in mathematics, science and engineering related to their branches; and the ability to apply theoretical and practical knowledge in these areas to model and solve engineering problems.
2) The ability to identify, formulate, and solve complex engineering problems; selecting and applying appropriate analysis and modeling methods for this purpose.
3) The ability to design a complex system, process, device or product under realistic constraints and conditions to meet specific requirements; the ability to apply modern design methods for this purpose. (Realistic constraints and conditions include such issues as economy, environmental issues, sustainability, manufacturability, ethics, health, safety, social and political issues, according to the nature of design.)
4) Ability to develop, select and use modern techniques and tools necessary for engineering applications; ability to use information technologies effectively.
5) Ability to design experiments, conduct experiments, collect data, analyze and interpret results to examine engineering problems or discipline-specific research topics.
6) The ability to work effectively in disciplinary and multidisciplinary teams; individual work skill.
7) Effective communication skills in Turkish oral and written communication; at least one foreign language knowledge; ability to write effective reports and understand written reports, to prepare design and production reports, to make effective presentations, to give and receive clear and understandable instructions.
8) Awareness of the need for lifelong learning; access to knowledge, ability to follow developments in science and technology, and constant self-renewal.
9) Conform to ethical principles, and standards of professional and ethical responsibility; be informed about the standards used in engineering applications.
10) Awareness of applications in business, such as project management, risk management and change management; awareness of entrepreneurship, and innovation; information about sustainable development.
11) Information about the universal and social health, environmental and safety effects of engineering applications and the ways in which contemporary problems are reflected in the engineering field; awareness of the legal consequences of engineering solutions.

Course - Learning Outcome Relationship

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

	Program Outcomes	Level of Contribution
1)	Sufficient knowledge in mathematics, science and engineering related to their branches; and the ability to apply theoretical and practical knowledge in these areas to model and solve engineering problems.	2
2)	The ability to identify, formulate, and solve complex engineering problems; selecting and applying appropriate analysis and modeling methods for this purpose.	2
3)	The ability to design a complex system, process, device or product under realistic constraints and conditions to meet specific requirements; the ability to apply modern design methods for this purpose. (Realistic constraints and conditions include such issues as economy, environmental issues, sustainability, manufacturability, ethics, health, safety, social and political issues, according to the nature of design.)	1
4)	Ability to develop, select and use modern techniques and tools necessary for engineering applications; ability to use information technologies effectively.	1
5)	Ability to design experiments, conduct experiments, collect data, analyze and interpret results to examine engineering problems or discipline-specific research topics.
6)	The ability to work effectively in disciplinary and multidisciplinary teams; individual work skill.
7)	Effective communication skills in Turkish oral and written communication; at least one foreign language knowledge; ability to write effective reports and understand written reports, to prepare design and production reports, to make effective presentations, to give and receive clear and understandable instructions.
8)	Awareness of the need for lifelong learning; access to knowledge, ability to follow developments in science and technology, and constant self-renewal.
9)	Conform to ethical principles, and standards of professional and ethical responsibility; be informed about the standards used in engineering applications.
10)	Awareness of applications in business, such as project management, risk management and change management; awareness of entrepreneurship, and innovation; information about sustainable development.
11)	Information about the universal and social health, environmental and safety effects of engineering applications and the ways in which contemporary problems are reflected in the engineering field; awareness of the legal consequences of engineering solutions.

Learning Activity and Teaching Methods

Expression
Brainstorming/ Six tihnking hats
Individual study and homework
Lesson

Assessment & Grading Methods and Criteria

Written Exam (Open-ended questions, multiple choice, true-false, matching, fill in the blanks, sequencing)
Bilgisayar Destekli Sunum

Assessment & Grading

Semester Requirements	Number of Activities	Level of Contribution
Presentation	1	% 20
Midterms	1	% 30
Final	1	% 40
Kanaat Notu	1	% 10
total		% 100
PERCENTAGE OF SEMESTER WORK		% 60
PERCENTAGE OF FINAL WORK		% 40
total		% 100

Workload and ECTS Credit Grading

Activities	Number of Activities	Duration (Hours)	Workload
Course Hours	15	3	45
Midterms	2	3	6
Final	1	2	2
Total Workload			53