The students who have succeeded in this course;
At the end of the course, students will be able to:
Genomes: Biological sequence analysis, comparative genomics, RNA structure, sequence alignment, Next Generation Sequences, Whole Genome Mapping, Transcriptomics
Networks: Gene expression, clustering / classification, motifs, Bayesian networks, microRNAs, regulatory genomics, epigenomics
Evolution: Gene / species trees, phylogenomics, coalescent, personal genomics, population genomics, human ancestry, recent selection, disease mapping |
| Week |
Subject |
Related Preparation |
| 1) |
Introduction |
|
| 2) |
Genomics data mining (Biological Databases) |
Practical Lab Assignment 1 |
| 3) |
Sequencing (Methods and Sequencing technologies) |
|
| 4) |
Whole Genome Mapping and Personal Genomics |
|
| 5) |
Downstream Analysis of Variant Detection and Methods Single Nucleotide Variations (SNPs) Structural Variations (SVs) Copy Number Variation (CNVs) (Part I) |
Practical Lab Assignment 2
(Based on Galaxy server, please check www.usegalaxy.org) |
| 6) |
Genomic Variation How and Why,we detect Genomic Variation(Genome Wide Analysis (GWAS) |
|
| 7) |
Downstream Analysis of Variant Detection and MethodsSingle Nucleotide Variations (SNPs)Structural Variations (SVs)Copy Number Variation (CNVs)(Part II) |
Practical Lab Assignment 3
(Based on Galaxy server, please check www.usegalaxy.org) |
| 8) |
RNA_Seq Analysis and Transcriptomics (Part I) |
|
| 9) |
Review for the midterm exam |
Midterm Exam |
| 10) |
RNA_Seq Analysis and Transcriptomics (Part II) |
|
| 11) |
Genome Assembly and Annotation |
Practical Lab Assignment 4
(Based on Galaxy server, please check www.usegalaxy.org) |
| 12) |
Comparative Computational Biology Methods |
|
| 13) |
Comparative Genomics |
|
| 14) |
Final Review |
|
| |
Program Outcomes |
Level of Contribution |
| 1) |
Build up a body of knowledge in mathematics, science and industrial engineering subjects; use theoretical and applied information in these areas to model and solve complex engineering problems. |
|
| 2) |
Identify, formulate, and solve complex engineering problems; select and apply proper analysis and modeling methods for this purpose. |
|
| 3) |
Design a complex system, process, device or product under realistic constraints and conditions, in such a way as to meet the desired result; apply modern design methods for this purpose. The ability to apply modern design methods to meet this objective. |
|
| 4) |
Devise, select, and use modern techniques and tools needed for solving complex problems in industrial engineering practice; employ information technologies effectively. |
|
| 5) |
Design and conduct experiments, collect data, analyze and interpret results for investigating the complex problems specific to industrial engineering. |
|
| 6) |
Cooperate efficiently in intra-disciplinary and multi-disciplinary teams; and show self-reliance when working independently. |
|
| 7) |
Demonstrate effective communication skills in both oral and written English and Turkish. Writing and understanding reports, preparing design and production reports, making effective presentations, giving and receiving clear and understandable instructions. |
|
| 8) |
Recognize the need for lifelong learning; show ability to access information, to follow developments in science and technology, and to continuously educate him/herself. |
3 |
| 9) |
Develop an awareness of professional and ethical responsibility, and behaving accordingly. Information about the standards used in engineering applications. |
|
| 10) |
Know business life practices such as project management, risk management, and change management; develop an awareness of entrepreneurship, innovation, and sustainable development. |
4 |
| 11) |
Know contemporary issues and the global and societal effects of modern age engineering practices on health, environment, and safety; recognize the legal consequences of engineering solutions. |
|
| 12) |
Develop effective and efficient managerial skills. |
|