FOREIGN TRADE (TURKISH) | |||||
Associate | TR-NQF-HE: Level 5 | QF-EHEA: Short Cycle | EQF-LLL: Level 5 |
Course Code | Course Name | Semester | Theoretical | Practical | Credit | ECTS |
MBG4059 | Computational Methods in Bioinformatics | Spring Fall |
3 | 0 | 3 | 6 |
This catalog is for information purposes. Course status is determined by the relevant department at the beginning of semester. |
Language of instruction: | English |
Type of course: | Non-Departmental Elective |
Course Level: | Associate (Short Cycle) |
Mode of Delivery: | Face to face |
Course Coordinator : | Dr. Öğr. Üyesi ELIZABETH HEMOND |
Course Objectives: | The goal of this course is to provide an understanding of the fundamental computational methods used in bioinformatics and the set of algorithms that have important applications both inside and outside of the bioinformatics field. |
The students who have succeeded in this course; 1. Recognize the fundamental models of computation useful in modeling nucleic acid and protein sequences. 2. Design and implement algorithms useful for analyzing various molecular biology data. 3. Discuss Genetic Algorithm and its applications in bioinformatics. 4. Discuss Greedy Algorithms and its applications in bioinformatics. 5. Discuss Gibbs sampling and its applications in bioinformatics. 6. Recognize Expectation Maximization and its applications in bioinformatics. 7. Recognize Hidden Markov models and its applications in bioinformatics. 8. Define Bayesian networks and its applications in bioinformatics. 9. Define graphs and its applications in bioinformatics. |
This course will provide a broad and thorough background in computational methods and algorithms that are widely used in bioinformatics applications. Various existing methods will be critically described and the strengths and limitations of each will be discussed. |
Week | Subject | Related Preparation |
1) | A brief introduction to computational complexity and algorithm design techniques | |
2) | Exact sequence search algorithms | |
3) | Rabin-Karp algorithm, pattern matching, suffix trees | |
4) | Elements of dynamic programming, Manhattan tourist problem, k-band algorithm | |
5) | Approximate string matching, divide and conquer algorithms | |
6) | Branch and bound search | |
7) | Genetic Algorithm | |
8) | Greedy Algorithms | |
9) | Gibbs sampling | |
10) | Expectation Maximization | |
11) | Hidden Markov models | |
12) | Bayesian networks | |
13) | Graphs | |
14) | Review |
Course Notes / Textbooks: | Haftalık ders notları iletilecektir. Weekly course notes will be provided. |
References: | An Introduction to Bioinformatics Algorithms (Computational Molecular Biology), Neil Jones and Pavel Pevzner, MIT Press, 2004. |
Semester Requirements | Number of Activities | Level of Contribution |
Homework Assignments | 2 | % 10 |
Project | 1 | % 15 |
Midterms | 1 | % 25 |
Final | 1 | % 50 |
Total | % 100 | |
PERCENTAGE OF SEMESTER WORK | % 35 | |
PERCENTAGE OF FINAL WORK | % 65 | |
Total | % 100 |
Activities | Number of Activities | Duration (Hours) | Workload |
Course Hours | 14 | 3 | 42 |
Study Hours Out of Class | 14 | 6 | 84 |
Presentations / Seminar | 5 | 4 | 20 |
Midterms | 1 | 2 | 2 |
Final | 1 | 2 | 2 |
Total Workload | 150 |
No Effect | 1 Lowest | 2 Low | 3 Average | 4 High | 5 Highest |
Program Outcomes | Level of Contribution | |
1) | He/she comprehends the main theories and terminology of International Trade. | |
2) | He/she comprehends the custom operations. | |
3) | He/she applies international finance and accounting knowledge to business life. | |
4) | He/she has skills of using computer and software. | |
5) | He/she analyses Turkey and EU foreign trade structure. | |
6) | He/she brings in the basic reason of international marketing. | |
7) | He/she consults basic law rules and legislation which built the legal frame of foreign trade. | |
8) | He/she evaluates and analyses risks which foreign trade companies may meet. | |
9) | He/she comprehends the international logistics and transportation. | |
10) | He/she has the qualification and eligibility to work on international platform. | |
11) | He/she uses efficient oral and written communication skills. | |
12) | He/she follows and applies the national and international actual and the economic developments about foreign trade. | |
13) | He/she has vocational ethical value that market needs in qualified staff, can use Turkish effectively in writing and speaking communication; have proficiency in foreign language knowledge to making international correspond. |