ECTS - Introduction to Bioinformatics
Introduction to Bioinformatics (SE446) Course Detail
| Course Name | Course Code | Season | Lecture Hours | Application Hours | Lab Hours | Credit | ECTS |
|---|---|---|---|---|---|---|---|
| Introduction to Bioinformatics | SE446 | Area Elective | 3 | 0 | 0 | 3 | 5 |
| Pre-requisite Course(s) |
|---|
| N/A |
| Course Language | English |
|---|---|
| Course Type | Elective Courses |
| Course Level | Bachelor’s Degree (First Cycle) |
| Mode of Delivery | Face To Face |
| Learning and Teaching Strategies | Lecture. |
| Course Lecturer(s) |
|
| Course Objectives | The objective of the course is to provide necessary knowledge and skills related to computational techniques for mining the large amount of biological data. In this course the applications of the computational techniques in bioinformatics will be introduced. |
| Course Learning Outcomes |
The students who succeeded in this course;
|
| Course Content | DNA and protein sequence alignment, phylogenetic trees, protein structure prediction, motive findin, microarray data analysis, gene/protein networks. |
Weekly Subjects and Releated Preparation Studies
| Week | Subjects | Preparation |
|---|---|---|
| 1 | Introduction | Chapters 1,2,3 (main text) |
| 2 | Producing and Analyzing Sequence Alignments | Chapter 4 |
| 3 | Pairwise Sequence Alignment and Database Searching | Chapter 5 |
| 4 | Pairwise Sequence Alignment and Database Searching | Chapter 5 |
| 5 | Patterns, Profiles, and Multiple Alignments | Chapter 6 |
| 6 | Patterns, Profiles, and Multiple Alignments | Chapter 6 |
| 7 | Recovering Evolutionary History | Chapter 7 |
| 8 | Building Phylogenetic Trees | Chapter 8 |
| 9 | Obtaining Secondary Structure from Sequence | Chapter 11 |
| 10 | Predicting Secondary Structures | Chapter 12 |
| 11 | Modeling Protein Structure | Chapter 13 |
| 12 | Clustering Methods and Statistics | Chapter 16 |
| 13 | Clustering Methods and Statistics | Chapter 16 |
| 14 | Clustering Methods and Statistics | Chapter 17 |
| 15 | Final Examination Period | Review of topics |
| 16 | Final Examination Period | Review of topics |
Sources
| Course Book | 1. M. Zvelebil and J. O. Baum, Understanding Bioinformatics, Garland Science, 2008 |
|---|---|
| Other Sources | 2. N. C. Jones and P. A. Pevzner, An Introduction to Bioinformatics Algorithms, MIT press, 2004 |
| 3. A. M. Lesk, Introduction to Bioinformatics, Oxford University Press, 2002 | |
| 4. D. Mount, Bioinformatics: Sequence and genome analysis, Cold Spring Harbor Laboratory Press, 2001 | |
| 5. T. Jiang, Y. Xu, and M. Zhang, eds. Current Topics in Computational Molecular Biology, MIT press, 2002 |
Evaluation System
| Requirements | Number | Percentage of Grade |
|---|---|---|
| Attendance/Participation | - | - |
| Laboratory | - | - |
| Application | - | - |
| Field Work | - | - |
| Special Course Internship | - | - |
| Quizzes/Studio Critics | - | - |
| Homework Assignments | 1 | 20 |
| Presentation | - | - |
| Project | 1 | 30 |
| Report | - | - |
| Seminar | - | - |
| Midterms Exams/Midterms Jury | 1 | 20 |
| Final Exam/Final Jury | 1 | 30 |
| Toplam | 4 | 100 |
| Percentage of Semester Work | 70 |
|---|---|
| Percentage of Final Work | 30 |
| Total | 100 |
Course Category
| Core Courses | X |
|---|---|
| Major Area Courses | |
| Supportive Courses | |
| Media and Managment Skills Courses | |
| Transferable Skill Courses |
The Relation Between Course Learning Competencies and Program Qualifications
| # | Program Qualifications / Competencies | Level of Contribution | ||||
|---|---|---|---|---|---|---|
| 1 | 2 | 3 | 4 | 5 | ||
| 1 | Adequate knowledge of mathematics, physical sciences and the subjects specific to engineering disciplines; the ability to apply theoretical and practical knowledge of these areas in the solution of complex engineering problems. | |||||
| 2 | The ability to define, formulate, and solve complex engineering problems; the ability to select and apply proper analysis and modeling methods for this purpose. | |||||
| 3 | The ability to design a complex system, process, device or product under realistic constraints and conditions in such a way as to meet the specific requirements; the ability to apply modern design methods for this purpose. | |||||
| 4 | The ability to select, and use modern techniques and tools needed to analyze and solve complex problems encountered in engineering practices; the ability to use information technologies effectively. | |||||
| 5 | The ability to design experiments, conduct experiments, gather data, and analyze and interpret results for investigating complex engineering problems or research areas specific to engineering disciplines. | |||||
| 6 | The ability to work efficiently in inter-, intra-, and multi-disciplinary teams; the ability to work individually. | X | ||||
| 7 | (a) Sözlü ve yazılı etkin iletişim kurma becerisi; etkin rapor yazma ve yazılı raporları anlama, tasarım ve üretim raporları hazırlayabilme, etkin sunum yapabilme, açık ve anlaşılır talimat verme ve alma becerisi. (b) En az bir yabancı dil bilgisi; bu yabancı dilde etkin rapor yazma ve yazılı raporları anlama, tasarım ve üretim raporları hazırlayabilme, etkin sunum yapabilme, açık ve anlaşılır talimat verme ve alma becerisi. | X | ||||
| 8 | Recognition of the need for lifelong learning; the ability to access information, follow developments in science and technology, and adapt and excel oneself continuously. | |||||
| 9 | Acting in conformity with the ethical principles; professional and ethical responsibility and knowledge of the standards employed in engineering applications. | |||||
| 10 | Knowledge of business practices such as project management, risk management, and change management; awareness of entrepreneurship and innovation; knowledge of sustainable development. | X | ||||
| 11 | Knowledge of the global and social effects of engineering practices on health, environment, and safety issues, and knowledge of the contemporary issues in engineering areas; awareness of the possible legal consequences of engineering practices. | |||||
| 12 | (a) Knowledge of (i) fluid mechanics, (ii) heat transfer, (iii) manufacturing process, (iv) electronics and control, (v) vehicle components design, (vi) vehicle dynamics, (vii) vehicle propulsion/drive and power systems, (viii) technical laws and regulations in automotive engineering field, and (ix) vehicle verification tests. (b) The ability to merge and apply these knowledge in solving multi-disciplinary automotive problems. | |||||
| 13 | The ability to make use of theoretical, experimental, and simulation methods, and computer aided design techniques in automotive engineering field. | |||||
| 14 | The ability to work in the field of vehicle design and manufacturing. | |||||
ECTS/Workload Table
| Activities | Number | Duration (Hours) | Total Workload |
|---|---|---|---|
| Course Hours (Including Exam Week: 16 x Total Hours) | 16 | 3 | 48 |
| Laboratory | |||
| Application | |||
| Special Course Internship | |||
| Field Work | |||
| Study Hours Out of Class | 16 | 2 | 32 |
| Presentation/Seminar Prepration | |||
| Project | |||
| Report | |||
| Homework Assignments | 3 | 5 | 15 |
| Quizzes/Studio Critics | |||
| Prepration of Midterm Exams/Midterm Jury | 2 | 10 | 20 |
| Prepration of Final Exams/Final Jury | 1 | 15 | 15 |
| Total Workload | 130 | ||