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Course Description Course Name : Molecular Genetic Analysis Methods Course Code : BİO528 Course Type : Optional Level of Course : Second Cycle Year of Study : 1 Course Semester : Fall and Spring (16 Weeks) ECTS : 6 Name of Lecturer(s) : InstructorDr. MEHMET BERTAN YILMAZ Assoc.Prof.Dr. AYFER PAZARBAŞI Learning Outcomes of the Course : Learns genome analysis methods Learns polymerase chain reaction mechanism and optimization Learns DNA isolation Learns the agarose and polyacrylamide gel electrophoresis of PCR products Learns how to prepare solutions and gels and the painting of gels Understands and practises QF PCR method Analyzes and interprets the results of PCR and QF PCR Learns PCR sorts Learns application fields (mutation scanning, PCR RLFP, Sequencing analysis, gene cloning) Learns real time PCR method and practices Learns Blotting techniques Mode of Delivery : Face-to-Face Prerequisites and Co-Prerequisites : BİO501 Principles of Medical Biology BİO502 Principles of Medical Genetics Recommended Optional Programme Components : None Aim(s) of Course : To teach students Genome analysis methods, polymerase chain reaction mechanism and optimization, DNA isolation, agarose and polyacrylamide gel electrophoresis of PCR products, how to prepare and paint solutions and gels, QF-PCR method, how to analyse and interpret the results of PCR and QF-PCR, PCR sorts, real time PCR method and practices, blotting techniques, application fields (PCR RLFP, Sequencing analysis, gene cloning). Course Contents : Genome analysis methods, polymerase chain reaction mechanism and optimization, DNA isolation, agarose and polyacrylamide gel electrophoresis of PCR products, preparing and painting solutions and gels, QF PCRT method, analysis and consideration of PCR and QF PCR results, PCR sorts and application fields ( mutation scanning, PCR-RFLP, sequencing analysis, gene cloning), Real time PCR method and applications, blotting methods Language of Instruction : Turkish Work Place : Seminar room   Course Outline /Schedule (Weekly) Planned Learning Activities Week Subject Student's Preliminary Work Learning Activities and Teaching Methods 1 Learning genome analysis methods Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 2 Learning the mechanism of polymerase chain reaction Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 3 Learning the optimization of PCR Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 4 Learning DNA isolation Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 5 Learning to prepare solutions and gels and the painting of gels Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 6 Learning to prepare solutions and gels and the painting of gels Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 7 Understanding and practicing QF PCR method Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 8 Midterm exam Preparing Multiple-choice questions Questions and applications 9 Learning PCR sorts Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 10 Analysing the results of PCR and QF PCR and interpreting them Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 11 Learning Real time PCR method and practices Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 12 Learning blotting methods Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 13 Learning application fields (mutation scanning, PCR RLFP) Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 14 Learning application fields (Sequencing analysis, gene cloning) Literature review and reading Pages to be read, web content to be examined, presentations, sample questions and applications 15 Revision and brainstorming Preparing Questions Brainstorming, discussion of different questions 16/17 Final exam   Required Course Resources Resource Type Resource Name Recommended Course Material(s)  Tıbbi Biyoloji ve Genetik, Editör: Prof. Dr. Halil Kasap, Nobel Tıp Kitabevi, Adana, 2010  Sambrook J and Russell DW. Molecular cloning, A Laboratory Manual. Third Edition. CSHL Press, 2001, 6.8-6.9  Klug WS, Cummings MR. Genetik Kavramlar, Altıncı baskıdan çeviri. Çev. Ed: Öner C. 2002; Palme yayıncılık.  Cooper GM. The Cell: A Molecular Approach, 2nd edition, 2007 Required Course Material(s)  Pazarbaşı A, Kasap M, Vardar MA, Alptekin D, Güzel AI, Lüleyap HÜ, Altıntaş A, Doran F. Screening of Codon 236, 238, 244, 248 and 259 Mutations of p53 Gene in Ovarian and Endometrial Carcinomas by RFLP Analysis. Ç.Ü.Sağlık Bil.Derg. 2007,23(2,3):1-8.  Pazarbaşı A., M. Kasap, AI. Güzel, H. Kasap, M. Onbaşıoğlu, B. Özbakır, A. Demirkazık, FT. Özgünen, E. Gürtunç, “Polymorphisms in the tumor necrosis factor-alpha gene in Turkish women with pre-eclampsia and eclampsia,” Acta Medica Okayama, 61(3), 153-160 (2007).  Güzel AI, O Demirhan, A Pazarbaşı, FT Ozgunen, S Kocaturk-Sel, D Tastemir. “Detection of Parental Origin and Cell Stage Errors of Double Non-disjunction in a Fetus by QF-PCR Using STR Markers”. Genetic-Testing, 2009;Volume.13(1): 73-77.   Assessment Methods and Assessment Criteria Semester/Year Assessments Number Contribution Percentage     Mid-term Exams (Written, Oral, etc.) 1 80     Homeworks/Projects/Others 7 20 Total 100 Rate of Semester/Year Assessments to Success 40   Final Assessments 100 Rate of Final Assessments to Success 60 Total 100   Contribution of the Course to Key Learning Outcomes # Key Learning Outcome Contribution* 1 Explains theorical debates of three main areas (philosophy, sociology, psychology) in relation to today´s problems 3 2 Knows the functions of tissues and organ systems. 2 3 Knows the structure of the genetic material. 5 4 Knows the genetic diseases and the genes that cause genetic diseases and disorders. 5 5 Is able to conduct molecular and cytogenetic diagnosis analysis. 5 6 Knows what numerical and structural abnormalities of the autosomes and the sex chromosomes mean and explain them. 2 7 Is able to do DNA isolation from all types of tissue. 5 8 Is able to perform PCR. 5 9 Is able to perform and interpret agarose and polyacrylamide gel electrophoresis. 5 10 Is able to measure the DNA obtained from tissues using a spectrophotometer. 5 11 Is capable of interpreting and implementing QF-PCR technique. 5 12 Is able to cell culture from blood, amniotic, chorionic villus biopsy specimens, and obtain chromosome preparation. 1 13 Is able to recognize and interpret all human chromosomes from the preparations derived from chromosome karyotype analysis. 1 14 Learns how to write and comment on a scientific article. 1 15 Knows the structure of genes. 5 16 Knows the chromosome and gene mutations. 4 17 Knows patterns of inheritance (autosomal dominant, autosomal recessive, sex-linked dominant and recessive inheritance models). 2 * Contribution levels are between 0 (not) and 5 (maximum).   Student Workload - ECTS Works Number Time (Hour) Total Workload (Hour) Course Related Works     Class Time (Exam weeks are excluded) 13 6 78     Out of Class Study (Preliminary Work, Practice) 13 4 52 Assesment Related Works     Homeworks, Projects, Others 7 3 21     Mid-term Exams (Written, Oral, etc.) 1 1 1     Final Exam 1 1 1 Total Workload: 153 Total Workload / 25 (h): 6.12 ECTS Credit: 6