The main purpose of the course is mining for potential results from the large amount of data generated by the use of omic technologies, evaluation and storage of these results, and verification of these methods. In addition, it is aimed to reveal the potential relationship network by processing the data obtained as a result of new generation sequencing techniques, proteomics and transcriptomic analyzes.
Biological Data Mining by Jake Y. Chen; Stefano Lonardi
Biological Data Mining and its Aplications in Healtcare (Science, Engineering, and Biology Informatics) by XIAOLI LI, SEE-KIONG NG, JASON T L WANG Data Mining in Bioinformatics (BIOKDD)
Other Sources
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Course Schedules
Week
Contents
Learning Methods
1. Week
Introduction to data mining
Oral prensentation
Computer based studies
2. Week
Examination of new generation sequencing techniques and analysis of the resulting data
Oral prensentation
Computer based studies
3. Week
Galaxy database
Oral prensentation
Computer based studies
4. Week
R language
Oral prensentation
Computer based studies
5. Week
Identification of microRNAs by R language and determination of their expression levels
Oral prensentation
Computer based studies
6. Week
Case 1: Determination of miRNA databases
Oral prensentation
Computer based studies
7. Week
Case 2: Analysis of the obtained miRNA results
Oral prensentation
Computer based studies
8. Week
Midterm
Oral prensentation
Computer based studies
9. Week
Protein database
Oral prensentation
Computer based studies
10. Week
2D gel electrophoresis spot analysis
Oral prensentation
Computer based studies
11. Week
Interactom analysis and relationship analysis in database
Oral prensentation
Computer based studies
12. Week
Project 1
Oral prensentation
Computer based studies
13. Week
Project 2
Oral prensentation
Computer based studies
14. Week
Final presentations
Oral prensentation
Computer based studies
15. Week
Final week
Oral prensentation
Computer based studies
16. Week
Final week
Oral prensentation
Computer based studies
17. Week
Homework presentations
Oral prensentation
Computer based studies
Assessments
Evaluation tools
Quantity
Weight(%)
Midterm(s)
1
25
Homework / Term Projects / Presentations
1
30
Attendance
1
5
Final Exam
1
40
Program Outcomes
PO-1
To apply all knowledge about basic sciences such as mathematics, physics, chemistry and biology to all problems in molecular biology and genetics
PO-2
To be able to identify, model and produce solutions against to problems related to molecular biology and genetics
PO-3
To start a procedure, proceed and finalize about determined problem by using analytical techniques
PO-4
To be able to understand all knowledge about living organisms which is main subject of molecular biology and genetics
PO-5
To contribute scientific research and development and add further information
PO-6
To be able to analyze data, design an experiment and proceed and annoate the results
PO-7
To be able to use current techniques and analysis methods in molecular biology and genetics
PO-8
To be able to be a part of a team in disciplinary or multidisciplinary, national or international public problems focused projects and use at least one foreign language for vocational purposes
PO-9
To be able to behave individually, take initiative and creativity skills
PO-10
To communicate briefly and clear using oral or written presentation skills to present individual working performance and independent decisions
PO-11
To carry responsibility to vocational and ethical issues
PO-12
To be aware about quality assessment
PO-13
To adopt in principle the importance of life-learning subject and graduate self-development by following new literature about field and apply current knowledge
Learning Outcomes
LO-1
The use of online analysis methods within the scope of molecular biology and genetics.
LO-2
Learning the experimental process and analysis process of next generation sequencing techniques
LO-3
Learning the experimental process and analysis process of proteomic studies
LO-4
Large-scale analysis of data using Galaxy, Prism, Pymol, GEO, DAVID Web based systems
LO-5
Discussion of transcriptomic and proteomic analysis
