BIOMEDICAL ENGINEERING
Bachelor	TR-NQF-HE: Level 6	QF-EHEA: First Cycle	EQF-LLL: Level 6

Course Introduction and Application Information

Course Code	Course Name	Semester	Theoretical	Practical	Credit	ECTS
MBG4057	Special Topics in Bioinformatics	Spring	3	0	3	6

This catalog is for information purposes. Course status is determined by the relevant department at the beginning of semester.

Basic information

Language of instruction:	English
Type of course:	Non-Departmental Elective
Course Level:	Bachelor’s Degree (First Cycle)
Mode of Delivery:	Face to face
Course Coordinator :	Dr. Öğr. Üyesi ELIZABETH HEMOND
Course Objectives:	This course aims to discuss technical papers from the recent bioinformatics literature, examine their algorithms and conduct an intensive study on a specific bioinformatics problem.

Learning Outcomes

The students who have succeeded in this course;
1. Define the open research questions in bioinformatics.
2. Discuss current solutions to tackle bioinformatics problems.
3. Develop an ability to discuss open research issues in computational biology.
4. Acquire an understanding of existing bioinformatics solutions for genomics.
5. Acquire an understanding of existing bioinformatics solutions for proteomics.
6. Develop an ability to focus on several bioinformatics articles and present their findings.
7. Obtain a familiarity with emerging topics in bioinformatics.
8. Obtain a familiarity with emerging topics in computational biology.
9. Develop an ability to find, read and discuss scientific articles published in the bioinformatics field.

Course Content

This discussion-based bioinformatics course will expose students to the latest developments in bioinformatics analyses and algorithms.

Weekly Detailed Course Contents

Week	Subject	Related Preparation
1)	Genomics (genome sequencing, storage and study of genome information, genome databases)
2)	Genomics (polymorphism in the human genome and association with diseases)
3)	Comparative genomics (genome subtraction method, whole-genome alignment methods, genome-context methods, gene-fusion method)
4)	Structural genomics (the scientific program of structural genomics, target selection in structural genomics)
5)	Functional genomics (integration of experimental and computational methods)
6)	Functional genomics (gene-expression data and DNA micro-arrays)
7)	Functional genomics (regulatory networks, protein-protein interaction networks)
8)	Proteomics, Protein folding and fold recognition
9)	Epigenomics
10)	Cancer informatics
11)	Non-coding RNA identification and search
12)	Emerging topics in bioinformatics
13)	Emerging topics in computational biology
14)	Presentations

Sources

Course Notes / Textbooks:	Haftalık ders notları iletilecektir. Course notes will be supplied.
References:	Articles from the primary literature (scientific journals, e.g. Nature Reviews Genetics, Nature, Science, Genome Research, Nature Genetics, Nature Methods, Bioinformatics, Molecular Systems Biology etc.)

Evaluation System

Semester Requirements	Number of Activities	Level of Contribution
Homework Assignments	2	% 15
Project	1	% 25
Midterms	1	% 10
Final	1	% 50
Total		% 100
PERCENTAGE OF SEMESTER WORK		% 25
PERCENTAGE OF FINAL WORK		% 75
Total		% 100

ECTS / Workload Table

Activities	Number of Activities	Duration (Hours)	Workload
Course Hours	14	3	42
Study Hours Out of Class	14	8	112
Midterms	1	2	2
Final	1	2	2
Total Workload			158

Contribution of Learning Outcomes to Programme Outcomes

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

	Program Outcomes	Level of Contribution
1)	Adequate knowledge of subjects specific to mathematics (analysis, linear, algebra, differential equations, statistics), science (physics, chemistry, biology) and related engineering discipline, and the ability to use theoretical and applied knowledge in these fields in complex engineering problems.
2)	Identify, formulate, and solve complex Biomedical Engineering problems; select and apply proper modeling and analysis methods for this purpose
3)	Design complex Biomedical systems, processes, devices or products under realistic constraints and conditions, in such a way as to meet the desired result; apply modern design methods for this purpose.
4)	Devise, select, and use modern techniques and tools needed for solving complex problems in Biomedical Engineering practice; employ information technologies effectively.
5)	Design and conduct numerical or physical experiments, collect data, analyze and interpret results for investigating the complex problems specific to Biomedical Engineering.
6)	Cooperate efficiently in intra-disciplinary and multi-disciplinary teams; and show self-reliance when working on Biomedical Engineering-related problems.
7)	Ability to communicate effectively in Turkish, oral and written, to have gained the level of English language knowledge (European Language Portfolio B1 general level) to follow the innovations in the field of Biomedical Engineering; gain the ability to write and understand written reports effectively, to prepare design and production reports, to make effective presentations, to give and receive clear and understandable instructions.
8)	Recognize the need for life-long learning; show ability to access information, to follow developments in science and technology, and to continuously educate oneself.
9)	Having knowledge for the importance of acting in accordance with the ethical principles of biomedical engineering and the awareness of professional responsibility and ethical responsibility and the standards used in biomedical engineering applications
10)	Learn about business life practices such as project management, risk management, and change management; develop an awareness of entrepreneurship, innovation, and sustainable development.
11)	Acquire knowledge about the effects of practices of Biomedical Engineering on health, environment, security in universal and social scope, and the contemporary problems of Biomedical Engineering; is aware of the legal consequences of Mechatronics engineering solutions.