Course Detail
Course Description
| Course | Code | Semester | T+P (Hour) | Credit | ECTS |
|---|---|---|---|---|---|
| SELECTED TOPICS in BIOINFORMATICS | MMBY1211561 | Spring Semester | 2+2 | 3 | 7 |
| Course Program |
| Prerequisites Courses | |
| Recommended Elective Courses |
| Language of Course | English |
| Course Level | Second Cycle (Master's Degree) |
| Course Type | Elective |
| Course Coordinator | Assist.Prof. Kıvanç KÖK |
| Name of Lecturer(s) | Assist.Prof. Kıvanç KÖK |
| Assistant(s) | |
| Aim | This course provides gradute level knowledge of bioinformatics by evaluation of selected topics in the field. |
| Course Content | This course contains; Introduction to fundamental bioinformatics,Introduction to Linux,Primary bioinformatics data formats and databases,Scientific programming and bioinformatics workflows,Statistical İnference and data mining in bioinformatics,Sequence alignments and motif search methods,Phylogenetic tree construction and comparative genomics,Structural bioinformatics of proteins,Genome data analysis,Transcriptome data analysis,Proteome data analysis,Mıcrobiome data analysıs,Network analysis and Systems Biology,Lastest advancements and emerging topics in bioinformatics. |
| Course Learning Outcomes | Teaching Methods | Assessment Methods |
| Students will gain knowledge about main concepts and key methods in bioinformatics. | 16, 37, 6 | A, E, G |
| Students will be able to retrieve, organize and manage biological data. Students will learn to recognize computational challenges and describe bioinformatics problems. Students will be able to comprehend related methodology and apply proper bioinformatics solutions. | 3, 37, 5, 6 | A, E, G |
| Students will be able to evaluate and interpret the data analysis result. Students will learn to use appropriate terminology and report bioinformatics findings. | 10, 12, 16, 37, 6 | A, E, G |
| Students will obtain novel insights into interdisciplinary and integrative research strategies. | 10, 16, 37, 6 | A, E, G |
| Students will be able to discuss recent developments and emerging topics in bioinformatics. Students being able to follow state-of-the-art research in this interdisciplinary field. | 10, 13, 14, 16, 6 | A, E, G |
| Teaching Methods: | 10: Discussion Method, 12: Problem Solving Method, 13: Case Study Method, 14: Self Study Method, 16: Question - Answer Technique, 3: Problem Baded Learning Model, 37: Computer-Internet Supported Instruction, 5: Cooperative Learning, 6: Experiential Learning |
| Assessment Methods: | A: Traditional Written Exam, E: Homework, G: Quiz |
Course Outline
| Order | Subjects | Preliminary Work |
|---|---|---|
| 1 | Introduction to fundamental bioinformatics | |
| 2 | Introduction to Linux | |
| 3 | Primary bioinformatics data formats and databases | |
| 4 | Scientific programming and bioinformatics workflows | |
| 5 | Statistical İnference and data mining in bioinformatics | |
| 6 | Sequence alignments and motif search methods | |
| 7 | Phylogenetic tree construction and comparative genomics | |
| 8 | Structural bioinformatics of proteins | |
| 9 | Genome data analysis | |
| 10 | Transcriptome data analysis | |
| 11 | Proteome data analysis | |
| 12 | Mıcrobiome data analysıs | |
| 13 | Network analysis and Systems Biology | |
| 14 | Lastest advancements and emerging topics in bioinformatics |
| Resources |
| Understanding bioinformatics. Published in 2008. Marketa Zvelebil & Jeremy O. Baum. ISBN-10: 0-8153-4024-9 (pbk.). Garland Science, Taylor & Francis Group, LLC. |
Course Contribution to Program Qualifications
| Course Contribution to Program Qualifications | |||||||
| No | Program Qualification | Contribution Level | |||||
| 1 | 2 | 3 | 4 | 5 | |||
| 1 | They develop a skill to access scientific information extensively by doing research on Molecular Medicine and Biotechnology and other related fields and to be able to evaluate, interpret and implement the obtained information | X | |||||
| 2 | They develop a skill to integrate and interpret information on various disciplines concerning practical fields of Molecular Medicine and Biotechnology. | X | |||||
| 3 | They are able to recognize the problems related to Molecular Medicine and Biotechnology field, develop methods for solving those problems, and they can implement the obtained information. | X | |||||
| 4 | They know the fundamental biostatistics approaches and methods. They are able to interpret scientific experimental data statistically. | X | |||||
| 5 | They develop a skill to be aware of new and developing applications in the fields of Molecular Medicine and Biotechnology and use and teach them efficiently when necessary. | X | |||||
| 6 | They are able to access available scientific information on the literature related to Molecular Medicine and Biotechnology fields, interpret critically and use such information. | X | |||||
| 7 | They develop a skill to produce new and original ideas and methods. | X | |||||
| 8 | They use their theoretical knowledge and critical thinking ability in their field of study, evaluate and interpret the results, and writes the report of the study. | X | |||||
| 9 | They develop a skill to take the lead within teams doing healthcare studies, develop new ideas to solve complicated situations, and take responsibility. | ||||||
| 10 | They develop a skill to convey (whether in written form or orally) the scientific information obtained by them at national or international platforms in a systematic and open manner. | ||||||
| 11 | They define a scientific or technical problem with the help of a consultant or individually, make suggestions for its solution and solve it when necessary. | X | |||||
| 12 | They develop the ability to act in accordance with ethical and professional principles at all stages of educational, practice, and research activities. They can evaluate the results obtained based on the quality criteria. | ||||||
| 13 | They can supervise and teach the social, scientific, cultural, and ethical values in the stages of collecting, interpreting, applying, and announcing the data related to the field of Molecular Medicine and Biotechnology. | ||||||
Assessment Methods
| Contribution Level | Absolute Evaluation | |
| Rate of Midterm Exam to Success | 50 | |
| Rate of Final Exam to Success | 50 | |
| Total | 100 | |
| ECTS / Workload Table | ||||||
| Activities | Number of | Duration(Hour) | Total Workload(Hour) | |||
| Course Hours | 0 | 0 | 0 | |||
| Guided Problem Solving | 0 | 0 | 0 | |||
| Resolution of Homework Problems and Submission as a Report | 0 | 0 | 0 | |||
| Term Project | 0 | 0 | 0 | |||
| Presentation of Project / Seminar | 0 | 0 | 0 | |||
| Quiz | 0 | 0 | 0 | |||
| Midterm Exam | 0 | 0 | 0 | |||
| General Exam | 0 | 0 | 0 | |||
| Performance Task, Maintenance Plan | 0 | 0 | 0 | |||
| Total Workload(Hour) | 0 | |||||
| Dersin AKTS Kredisi = Toplam İş Yükü (Saat)/30*=(0/30) | 0 | |||||
| ECTS of the course: 30 hours of work is counted as 1 ECTS credit. | ||||||
Detail Informations of the Course
Course Description
| Course | Code | Semester | T+P (Hour) | Credit | ECTS |
|---|---|---|---|---|---|
| SELECTED TOPICS in BIOINFORMATICS | MMBY1211561 | Spring Semester | 2+2 | 3 | 7 |
| Course Program |
| Prerequisites Courses | |
| Recommended Elective Courses |
| Language of Course | English |
| Course Level | Second Cycle (Master's Degree) |
| Course Type | Elective |
| Course Coordinator | Assist.Prof. Kıvanç KÖK |
| Name of Lecturer(s) | Assist.Prof. Kıvanç KÖK |
| Assistant(s) | |
| Aim | This course provides gradute level knowledge of bioinformatics by evaluation of selected topics in the field. |
| Course Content | This course contains; Introduction to fundamental bioinformatics,Introduction to Linux,Primary bioinformatics data formats and databases,Scientific programming and bioinformatics workflows,Statistical İnference and data mining in bioinformatics,Sequence alignments and motif search methods,Phylogenetic tree construction and comparative genomics,Structural bioinformatics of proteins,Genome data analysis,Transcriptome data analysis,Proteome data analysis,Mıcrobiome data analysıs,Network analysis and Systems Biology,Lastest advancements and emerging topics in bioinformatics. |
| Course Learning Outcomes | Teaching Methods | Assessment Methods |
| Students will gain knowledge about main concepts and key methods in bioinformatics. | 16, 37, 6 | A, E, G |
| Students will be able to retrieve, organize and manage biological data. Students will learn to recognize computational challenges and describe bioinformatics problems. Students will be able to comprehend related methodology and apply proper bioinformatics solutions. | 3, 37, 5, 6 | A, E, G |
| Students will be able to evaluate and interpret the data analysis result. Students will learn to use appropriate terminology and report bioinformatics findings. | 10, 12, 16, 37, 6 | A, E, G |
| Students will obtain novel insights into interdisciplinary and integrative research strategies. | 10, 16, 37, 6 | A, E, G |
| Students will be able to discuss recent developments and emerging topics in bioinformatics. Students being able to follow state-of-the-art research in this interdisciplinary field. | 10, 13, 14, 16, 6 | A, E, G |
| Teaching Methods: | 10: Discussion Method, 12: Problem Solving Method, 13: Case Study Method, 14: Self Study Method, 16: Question - Answer Technique, 3: Problem Baded Learning Model, 37: Computer-Internet Supported Instruction, 5: Cooperative Learning, 6: Experiential Learning |
| Assessment Methods: | A: Traditional Written Exam, E: Homework, G: Quiz |
Course Outline
| Order | Subjects | Preliminary Work |
|---|---|---|
| 1 | Introduction to fundamental bioinformatics | |
| 2 | Introduction to Linux | |
| 3 | Primary bioinformatics data formats and databases | |
| 4 | Scientific programming and bioinformatics workflows | |
| 5 | Statistical İnference and data mining in bioinformatics | |
| 6 | Sequence alignments and motif search methods | |
| 7 | Phylogenetic tree construction and comparative genomics | |
| 8 | Structural bioinformatics of proteins | |
| 9 | Genome data analysis | |
| 10 | Transcriptome data analysis | |
| 11 | Proteome data analysis | |
| 12 | Mıcrobiome data analysıs | |
| 13 | Network analysis and Systems Biology | |
| 14 | Lastest advancements and emerging topics in bioinformatics |
| Resources |
| Understanding bioinformatics. Published in 2008. Marketa Zvelebil & Jeremy O. Baum. ISBN-10: 0-8153-4024-9 (pbk.). Garland Science, Taylor & Francis Group, LLC. |
Course Contribution to Program Qualifications
| Course Contribution to Program Qualifications | |||||||
| No | Program Qualification | Contribution Level | |||||
| 1 | 2 | 3 | 4 | 5 | |||
| 1 | They develop a skill to access scientific information extensively by doing research on Molecular Medicine and Biotechnology and other related fields and to be able to evaluate, interpret and implement the obtained information | X | |||||
| 2 | They develop a skill to integrate and interpret information on various disciplines concerning practical fields of Molecular Medicine and Biotechnology. | X | |||||
| 3 | They are able to recognize the problems related to Molecular Medicine and Biotechnology field, develop methods for solving those problems, and they can implement the obtained information. | X | |||||
| 4 | They know the fundamental biostatistics approaches and methods. They are able to interpret scientific experimental data statistically. | X | |||||
| 5 | They develop a skill to be aware of new and developing applications in the fields of Molecular Medicine and Biotechnology and use and teach them efficiently when necessary. | X | |||||
| 6 | They are able to access available scientific information on the literature related to Molecular Medicine and Biotechnology fields, interpret critically and use such information. | X | |||||
| 7 | They develop a skill to produce new and original ideas and methods. | X | |||||
| 8 | They use their theoretical knowledge and critical thinking ability in their field of study, evaluate and interpret the results, and writes the report of the study. | X | |||||
| 9 | They develop a skill to take the lead within teams doing healthcare studies, develop new ideas to solve complicated situations, and take responsibility. | ||||||
| 10 | They develop a skill to convey (whether in written form or orally) the scientific information obtained by them at national or international platforms in a systematic and open manner. | ||||||
| 11 | They define a scientific or technical problem with the help of a consultant or individually, make suggestions for its solution and solve it when necessary. | X | |||||
| 12 | They develop the ability to act in accordance with ethical and professional principles at all stages of educational, practice, and research activities. They can evaluate the results obtained based on the quality criteria. | ||||||
| 13 | They can supervise and teach the social, scientific, cultural, and ethical values in the stages of collecting, interpreting, applying, and announcing the data related to the field of Molecular Medicine and Biotechnology. | ||||||
Assessment Methods
| Contribution Level | Absolute Evaluation | |
| Rate of Midterm Exam to Success | 50 | |
| Rate of Final Exam to Success | 50 | |
| Total | 100 | |