Computer Engineering (Master) (with Thesis) (English) | |||||
Master | TR-NQF-HE: Level 7 | QF-EHEA: Second Cycle | EQF-LLL: Level 7 |
Course Code: | AO5017 | ||||
Course Name: | Computational Biology | ||||
Semester: |
Fall Spring |
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Course Credits: |
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Language of instruction: | English | ||||
Course Condition: | |||||
Does the Course Require Work Experience?: | No | ||||
Type of course: | Departmental Elective | ||||
Course Level: |
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Mode of Delivery: | E-Learning | ||||
Course Coordinator: | Dr. Öğr. Üy. SELİM KALAYCI | ||||
Course Lecturer(s): | Selim Kalayci | ||||
Course Assistants: |
Course Objectives: | The course aims to provide an overview of technical knowledge and tools related to computational biology. The course will form the basis for the creation, processing and interpretation of datasets used in computational biology. |
Course Content: | The course includes basic concepts of genetics and genomics, next generation sequencing technologies, DNA sequencing, RNA sequencing, basic biology/bioinformatics databases and datasets, basic bioinformatics tools necessary for processing biological data, biological networks and creating and processing biological networks. |
The students who have succeeded in this course;
1) 1.Define basic genetics and genomics concepts; 2) 2.Recognize DNA sequencing and processing steps and computational tools used; 3) 3. Recognize RNA sequencing and processing steps and computational tools used; 4) 4. Recognize and use datasets required for protein identification and processing; 5) 5. Describe the processes of creating biological networks and use the necessary tools for processing these networks. |
Week | Subject | Related Preparation |
1) | Introduction to computational biology concepts, DNA, genetics, genomics | |
2) | Human genome project, omics technologies | |
3) | DNA sequencing and data analysis | |
4) | Sequence alignment, gene variants and processing of variants | |
5) | Genome wide association studies and related databases | |
6) | RNA sequencing and data analysis | |
7) | Midterm exam | |
8) | Differential expression gene analysis and related databases | |
9) | Proteins and related databases | |
10) | Biological networks | |
11) | Types of biological networks and their analysis | |
12) | Machine learning and computational biology | |
13) | Student paper presentations | |
14) | Student paper presentations | |
15) | Final exam |
Course Notes / Textbooks: | Selected Papers |
References: | Selected Papers |
Course Learning Outcomes | 1 |
2 |
3 |
4 |
5 |
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Program Outcomes | ||||||||||||
1) Being able to develop and deepen their knowledge at the level of expertise in the same or a different field, based on undergraduate level qualifications. | 2 | 2 | 2 | 2 | 2 | |||||||
2) To be able to use the theoretical and applied knowledge at the level of expertise acquired in the field. | 2 | 2 | 2 | 2 | 2 | |||||||
3) To be able to interpret and create new knowledge by integrating the knowledge gained in the field with the knowledge from different disciplines. | 3 | 3 | 3 | 3 | 3 | |||||||
4) To be able to solve the problems encountered in the field by using research methods. | 1 | 1 | 1 | 1 | 1 | |||||||
5) Being able to independently carry out a work that requires expertise in the field. | ||||||||||||
6) To be able to develop new strategic approaches for the solution of complex and unpredictable problems encountered in applications related to the field and to produce solutions by taking responsibility. | 1 | 1 | 1 | 1 | 1 | |||||||
7) To be able to critically evaluate the knowledge and skills acquired in the field of expertise and to direct their learning. | 2 | 2 | 2 | 2 | 2 | |||||||
8) To be able to systematically transfer current developments in the field and their own studies to groups in and outside the field, in written, verbal and visual forms, by supporting them with quantitative and qualitative data. | 3 | 3 | 3 | 3 | 3 | |||||||
9) To be able to communicate orally and in writing using a foreign language at least at the B2 General Level of the European Language Portfolio. | ||||||||||||
10) To be able to use information and communication technologies at an advanced level along with computer software at the level required by the field. | 3 | 3 | 3 | 3 | 3 | |||||||
11) To be able to supervise and teach these values by observing social, scientific, cultural and ethical values in the stages of collecting, interpreting, applying and announcing the data related to the field. | 1 | 1 | 1 | 1 | 1 | |||||||
12) To be able to use the knowledge, problem solving and/or application skills they have internalized in their field in interdisciplinary studies. | 3 | 3 | 3 | 3 | 3 |
No Effect | 1 Lowest | 2 Average | 3 Highest |
Program Outcomes | Level of Contribution | |
1) | Being able to develop and deepen their knowledge at the level of expertise in the same or a different field, based on undergraduate level qualifications. | 2 |
2) | To be able to use the theoretical and applied knowledge at the level of expertise acquired in the field. | 2 |
3) | To be able to interpret and create new knowledge by integrating the knowledge gained in the field with the knowledge from different disciplines. | 3 |
4) | To be able to solve the problems encountered in the field by using research methods. | 1 |
5) | Being able to independently carry out a work that requires expertise in the field. | |
6) | To be able to develop new strategic approaches for the solution of complex and unpredictable problems encountered in applications related to the field and to produce solutions by taking responsibility. | 1 |
7) | To be able to critically evaluate the knowledge and skills acquired in the field of expertise and to direct their learning. | 2 |
8) | To be able to systematically transfer current developments in the field and their own studies to groups in and outside the field, in written, verbal and visual forms, by supporting them with quantitative and qualitative data. | 3 |
9) | To be able to communicate orally and in writing using a foreign language at least at the B2 General Level of the European Language Portfolio. | |
10) | To be able to use information and communication technologies at an advanced level along with computer software at the level required by the field. | 3 |
11) | To be able to supervise and teach these values by observing social, scientific, cultural and ethical values in the stages of collecting, interpreting, applying and announcing the data related to the field. | 1 |
12) | To be able to use the knowledge, problem solving and/or application skills they have internalized in their field in interdisciplinary studies. | 3 |
Semester Requirements | Number of Activities | Level of Contribution |
Quizzes | 3 | % 15 |
Presentation | 1 | % 20 |
Midterms | 1 | % 25 |
Final Pratik | 2 | % 40 |
total | % 100 | |
PERCENTAGE OF SEMESTER WORK | % 100 | |
PERCENTAGE OF FINAL WORK | % | |
total | % 100 |
Activities | Number of Activities | Workload |
Course Hours | 14 | 42 |
Project | 14 | 42 |
Midterms | 16 | 25 |
Final | 14 | 41 |
Total Workload | 150 |