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 | Technical 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 | |
|---|---|
| Major Area Courses | X |
| 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 | Gains adequate knowledge in mathematics, science, and subjects specific to the software engineering discipline; acquires the ability to apply theoretical and practical knowledge of these areas to complex engineering problems. | X | ||||
| 2 | Gains the ability to identify, define, formulate, and solve complex engineering problems; selects and applies proper analysis and modeling techniques for this purpose. | X | ||||
| 3 | Develops the ability to design a complex system, process, device, or product under realistic constraints and conditions to meet specific requirements; applies modern design methods for this purpose. | X | ||||
| 4 | Demonstrates the ability to select, and utilize modern techniques and tools essential for the analysis and determination of complex problems in software engineering applications; uses information technologies effectively. | X | ||||
| 5 | Develops the ability to design experiments, gather data, analyze, and interpret results for the investigation of complex engineering problems or research topics specific to the software engineering discipline. | X | ||||
| 6 | Demonstrates the ability to work effectively both individually and in disciplinary and interdisciplinary teams in fields related to software engineering. | X | ||||
| 7 | Demonstrates the ability to communicate effectively in Turkish, both orally and in writing; to write effective reports and understand written reports, to prepare design and production reports, to deliver effective presentations, and to give and receive clear and understandable instructions. | |||||
| 8 | Gains knowledge of at least one foreign language; acquires the ability to write effective reports and understand written reports, prepare design and production reports, deliver effective presentations, and give and receive clear and understandable instructions. | |||||
| 9 | Acquires an awareness of the necessity of lifelong learning; the ability to access information, follow developments in science and technology, and continuously improve oneself. | X | ||||
| 10 | Acts in accordance with ethical principles and possesses knowledge of professional and ethical responsibilities. | X | ||||
| 11 | Knows the standards used in software engineering practices. | |||||
| 12 | Knows about business practices such as project management, risk management and change management. | X | ||||
| 13 | Gains awareness about entrepreneurship and innovation. | |||||
| 14 | Gains knowledge on sustainable development. | |||||
| 15 | Has knowledge about the universal and societal impacts of software engineering practices on health, environment, and safety, as well as the contemporary issues reflected in the field of engineering. | X | ||||
| 16 | Acquires awareness of the legal consequences of engineering solutions. | |||||
| 17 | Applies knowledge and skills in identifying user needs, developing user-focused solutions and improving user experience. | X | ||||
| 18 | Gains the ability to apply engineering approaches in the development of software systems by carrying out analysis, design, implementation, verification, validation, and maintenance processes. | X | ||||
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 | ||