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Description of Individual Course Units

Course Unit Code Course Unit Title Type Of Course D U L ECTS BST 6004 SYSTEMS BIOLOGY ELECTIVE 3 0 0 12

Offered By

Biomedicine and Health Technologies

Level of Course Unit

Third Cycle Programmes (Doctorate Degree)

Course Coordinator

ASSISTANT PROFESSOR ATHANASIA PAVLOPOULOU

Offered to

Biomedicine and Health Technologies

Course Objective

To apply computational methods to the study of biological systems.

Learning Outcomes of the Course Unit

1   1. To provide an introduction to systems biology research 2   2. To become familiar with repositories of biological metadata 3   3. To dissect molecular pathways in silico 4   4. To apply computational methods for processing networks of biological entities 5   5. To construct and analyze networks of biomolecular interactions 6   6. To construct and analyze gene regulatory networks 7   7. To investigate the relationship between genotypes and phenotypes 8   8. To investigate disease-disease associations (diseasome) 9   9. To identify biomarkers and drug targets for complex diseases 10   10. To infer evolutionary relationships among species 11   11. To present research findings

Mode of Delivery

Face -to- Face

Prerequisites and Co-requisites

None

Recomended Optional Programme Components

None

Course Contents

Week Subject Description 1 Introduction 2 Biological meta-databases I 3 Biological meta-databases II 4 Biomolecular pathways 5 Networks-based methods I 6 Networks-based methods II 7 Gene regulatory networks 8 Midterm 9 Transcriptional regulatory networks 10 Protein association networks 11 Computational functional genomics 12 Network medicine I 13 Network medicine II 14 Computational phylogenetics 15 Comparative genomics 16 Final Exam

Recomended or Required Reading

Systems Biology: A Textbook, 2nd Edition, by Edda Klipp, Wolfram Liebermeister, Christoph Wierling, Axel Kowald. Wiley-Blackwell, 2016 ISBN: 978-3-527-33636-4

Planned Learning Activities and Teaching Methods

Oral presentation, literature search, discussion and hands-on practice.

Assessment Methods

SORTING NUMBER SHORT CODE LONG CODE FORMULA 1 ASG ASSIGNMENT 2 MTE MIDTERM EXAM 3 FIN FINAL EXAM 4 FCG FINAL COURSE GRADE ASG * 0.30 + MTE * 0.30 + FIN * 0.40 5 RST RESIT 6 FCGR FINAL COURSE GRADE (RESIT) ASG * 0.30 + MTE * 0.30 + RST * 0.40 *** Resit Exam is Not Administered in Institutions Where Resit is not Applicable.

Further Notes About Assessment Methods

None

Assessment Criteria

To be announced.

Language of Instruction

English

Course Policies and Rules

To be announced.

Contact Details for the Lecturer(s)

athanasia.pavlopoulou@deu.edu.tr

Office Hours

To be announced.

Work Placement(s)

None

Workload Calculation

Activities Number Time (hours) Total Work Load (hours) Lectures 14 3 42 Preparations before/after weekly lectures 14 8 112 Preparation for midterm exam 1 20 20 Preparation for final exam 1 25 25 Preparing assignments 2 30 60 Preparing presentations 1 35 35 Midterm 1 5 5 Final 1 5 5 TOTAL WORKLOAD (hours) 304

Contribution of Learning Outcomes to Programme Outcomes

PO/LO PO.1 PO.2 PO.3 PO.4 PO.5 PO.6 PO.7 PO.8 LO.1 5 5 5 5 LO.2 5 5 5 LO.3 5 5 5 LO.4 5 5 5 LO.5 5 5 5 LO.6 5 5 5 LO.7 5 5 5 LO.8 5 5 5 LO.9 5 5 5 LO.10 5 5 5 LO.11 5 5