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 | Adequate knowledge in mathematics, science and subjects specific to the software engineering discipline; the ability to apply theoretical and practical knowledge of these areas to complex engineering problems. | X | ||||
| 2 | The ability to identify, define, formulate and solve complex engineering problems; selecting and applying proper analysis and modeling techniques for this purpose. | X | ||||
| 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. | X | ||||
| 4 | The ability to develop, select and utilize modern techniques and tools essential for the analysis and determination of complex problems in software engineering applications; the ability to utilize information technologies effectively. | X | ||||
| 5 | The ability to gather data, analyze and interpret results for the investigation of complex engineering problems or research topics specific to the software engineering discipline. | X | ||||
| 6 | The ability to work effectively in inter/inner disciplinary teams; ability to work individually. | X | ||||
| 7 | Effective oral and written communication skills in Turkish; the ability to write effective reports and comprehend written reports, to prepare design and production reports, to make effective presentations, to give and receive clear and understandable instructions. | |||||
| 8 | The knowledge of at least one foreign language; the ability to write effective reports and comprehend written reports, to prepare design and production reports, to make effective presentations, to give and receive clear and understandable instructions. | |||||
| 9 | Recognition of the need for lifelong learning; the ability to access information and follow recent developments in science and technology with continuous self-development | X | ||||
| 10 | The ability to behave according to ethical principles, awareness of professional and ethical responsibility. | X | ||||
| 11 | Knowledge of the standards utilized in software engineering applications. | |||||
| 12 | Knowledge on business practices such as project management, risk management and change management. | X | ||||
| 13 | Awareness about entrepreneurship, and innovation. | |||||
| 14 | Knowledge on sustainable development. | |||||
| 15 | Knowledge of the effects of software engineering applications on the universal and social dimensions of health, environment, and safety. | X | ||||
| 16 | Awareness of the legal consequences of engineering solutions. | |||||
| 17 | An ability to apply algorithmic principles, mathematical foundations, and computer science theory in the modeling and design of computer-based systems with the trade-offs involved in design choices. | X | ||||
| 18 | The ability to apply engineering approach to the development of software systems by analyzing, designing, implementing, verifying, validating and maintaining software systems. | 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 | ||