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Information
| Code | ZO615 |
| Name | Introduction to Bioinformatics |
| Term | 2022-2023 Academic Year |
| Semester | . Semester |
| Duration (T+A) | 4-0 (T-A) (17 Week) |
| ECTS | 6 ECTS |
| National Credit | 4 National Credit |
| Teaching Language | Türkçe |
| Level | Doktora Dersi |
| Type | Normal |
| Mode of study | Yüz Yüze Öğretim |
| Catalog Information Coordinator | Prof. Dr. ZEYNEL CEBECİ |
Course Goal / Objective
This course aims to teach the bioinformatics related databases,pairwise and multiple sequence alignment methods, phylogenetic trees and other visualization techniques, and statistical analysis of biological data.
Course Content
This course covers bioinformatics related databases,pairwise and multiple sequence alignment methods, phylogenetic trees and other visualization techniques, and statistical analysis of biological data.
Course Precondition
No prerequisites
Resources
Şakiroğlu, M. (2020). Bioinformatic Methods for Genomic Analysis. Palme Yayınevi, ISBN 9786052825419
Notes
Lesk, A. (2019). Introduction to bioinformatics. Oxford university press.
Course Learning Outcomes
| Order | Course Learning Outcomes |
|---|---|
| LO01 | Undestands the essentials of bilological information essentials. |
| LO02 | Use the biological information databases. |
| LO03 | Learns the gene and protein sequence alignment algorithms. |
| LO04 | Generates and interprets phylogenetic trees. |
Relation with Program Learning Outcome
| Order | Type | Program Learning Outcomes | Level |
|---|---|---|---|
| PLO01 | Bilgi - Kuramsal, Olgusal | After undergraduate education, increases knowledge in one of the fields of animal breeding and breeding, feeds and animal nutrition, biometrics and genetics. | 3 |
| PLO02 | Bilgi - Kuramsal, Olgusal | Understands the interaction between different disciplines | 1 |
| PLO03 | Bilgi - Kuramsal, Olgusal | Gains the ability to develop strategic approaches and produce regional, national or international solutions for the field of animal science | |
| PLO04 | Bilgi - Kuramsal, Olgusal | Gains the ability to develop knowledge with scientific methods by using the data in animal science, and to use this knowledge with the awareness of scientific, social and ethical responsibility. | 2 |
| PLO05 | Bilgi - Kuramsal, Olgusal | Gains the ability to use and develop information technologies with computer software and hardware knowledge required by the field of animal science. | 5 |
| PLO06 | Bilgi - Kuramsal, Olgusal | Gains the ability to convey their own studies or current developments in the field of animal science to groups in the field or other fields of science, verbally and visually. | |
| PLO07 | Bilgi - Kuramsal, Olgusal | Gains the ability to evaluate the quality processes of animal products | |
| PLO08 | Bilgi - Kuramsal, Olgusal | Gains the ability to keep animal production dynamic in accordance with changing economic and social conditions. | |
| PLO09 | Bilgi - Kuramsal, Olgusal | Gains the ability to follow national and international current issues, to follow developments in lifelong learning, science and technology, to constantly renew themselves and to transfer innovations to animal production. | |
| PLO10 | Bilgi - Kuramsal, Olgusal | Hayvansal ürünler ile insan sağlığı ve toplum refahı arasındaki ilişkiyi özümser |
Week Plan
| Week | Topic | Preparation | Methods |
|---|---|---|---|
| 1 | Introduction to bioinformatics | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 2 | Biological information and the related databases | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 3 | Pairwise sequence alignment | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 4 | Database similarity querying | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 5 | Multiple sequence alignment | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 6 | Genes ontologies and databases | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 7 | Generation of phylogenetic trees | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 8 | Mid-Term Exam | Preparation for the exam | Ölçme Yöntemleri: Sözlü Sınav, Ödev |
| 9 | Protein structure essentials | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 10 | Protein structure visualization | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 11 | Genome mapping and assembly | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 12 | Installation of R and working with R packages | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Alıştırma ve Uygulama |
| 13 | Case studies (1) | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Gösterip Yaptırma |
| 14 | Case studies (2) | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Gösterip Yaptırma |
| 15 | Case studies (3) | Searching for the learning resources on the Internet, reading the tutorials, lecture notes and textbooks, and problem solving related with the topic. | Öğretim Yöntemleri: Gösterip Yaptırma |
| 16 | Term Exams | Preparation for the exam | Ölçme Yöntemleri: Sözlü Sınav, Ödev |
| 17 | Term Exams | Preparation for the exam | Ölçme Yöntemleri: Sözlü Sınav, Ödev |
Student Workload - ECTS
| Works | Number | Time (Hour) | Workload (Hour) |
|---|---|---|---|
| Course Related Works | |||
| Class Time (Exam weeks are excluded) | 14 | 4 | 56 |
| Out of Class Study (Preliminary Work, Practice) | 14 | 4 | 56 |
| Assesment Related Works | |||
| Homeworks, Projects, Others | 0 | 0 | 0 |
| Mid-term Exams (Written, Oral, etc.) | 1 | 12 | 12 |
| Final Exam | 1 | 28 | 28 |
| Total Workload (Hour) | 152 | ||
| Total Workload / 25 (h) | 6,08 | ||
| ECTS | 6 ECTS | ||