1. SECOND CYCLE - MASTER'S DEGREE
  2. THE GRADUATE SCHOOL OF NATURAL AND APPLIED SCIENCES
  3. ADVANCED TECHNOLOGIES DEPARTMENT
  4. 1247 ADVANCED TECHNOLOGIES
Course Information Course Learning Outcomes Course's Contribution To Program ECTS Workload Course Details
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COURSE INFORMATION
Course CodeCourse TitleL+P HourSemesterECTS
ILT 534MOLECULAR PHYLOGENETICS ANALYSIS3 + 02nd Semester7,5

COURSE DESCRIPTION
Course Level Master's Degree
Course Type Elective
Course Objective The aim of this course is to enable phylogenetic analysis by obtaining gene regions of living things with marker technologies and using various computer programs, and to provide information about the advanced techniques used.
Course Content DNA-RNA structure, DNA isolation and PCR, Use of databases, Editing and comparison of DNA sequences, Evolutionary changes in DNA sequences and nucleotide substitution models, Nucleotide saturation, BLAST, Package programs (MEGA, DAMBE, PAUP, PhyML, RAXMLGUI, MrBayes, BEAST, FigTree, SplitsTree) and their uses, Methods used to create trees in molecular phylogenetic analyzes (distance, parsimony, neighbor-joining, maximum likelihood and Bayesian methods), Network analysis.
Prerequisites No the prerequisite of lesson.
Corequisite No the corequisite of lesson.
Mode of Delivery Face to Face

COURSE LEARNING OUTCOMES
1Knows the DNA-RNA structure and can perform isolation.
2It uses databases and can make comparisons.
3Can use various computer programs used in phylogenetics.
4Can perform phylogenetic analyses.
5Can perform network analysis.

COURSE'S CONTRIBUTION TO PROGRAM
PO 01PO 02PO 03PO 04PO 05PO 06PO 07PO 08PO 09PO 10PO 11PO 12
LO 001            
LO 002            
LO 003            
LO 004            
LO 005            
Sub Total            
Contribution000000000000

ECTS ALLOCATED BASED ON STUDENT WORKLOAD BY THE COURSE DESCRIPTION
ActivitiesQuantityDuration (Hour)Total Work Load (Hour)
Course Duration (14 weeks/theoric+practical)14342
Hours for off-the-classroom study (Pre-study, practice)14798
Assignments12828
Mid-terms11212
Final examination11515
Total Work Load

ECTS Credit of the Course





195

7,5
COURSE DETAILS
 Select Year   


 Course TermNoInstructors
Details 2023-2024 Spring1ADİLE SARI


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Course Details
Course Code Course Title L+P Hour Course Code Language Of Instruction Course Semester
ILT 534 MOLECULAR PHYLOGENETICS ANALYSIS 3 + 0 1 Turkish 2023-2024 Spring
Course Coordinator  E-Mail  Phone Number  Course Location Attendance
Assoc. Prof. Dr. ADİLE SARI aozdemir@pau.edu.tr DTMYO A0013 %70
Goals The aim of this course is to enable phylogenetic analysis by obtaining gene regions of living things with marker technologies and using various computer programs, and to provide information about the advanced techniques used.
Content DNA-RNA structure, DNA isolation and PCR, Use of databases, Editing and comparison of DNA sequences, Evolutionary changes in DNA sequences and nucleotide substitution models, Nucleotide saturation, BLAST, Package programs (MEGA, DAMBE, PAUP, PhyML, RAXMLGUI, MrBayes, BEAST, FigTree, SplitsTree) and their uses, Methods used to create trees in molecular phylogenetic analyzes (distance, parsimony, neighbor-joining, maximum likelihood and Bayesian methods), Network analysis.
Topics
WeeksTopics
1 DNA and RNA structure
2 DNA isolation and PCR
3 Sequence Analysis
4 Use of databases
5 Editing DNA sequences
6 BLAST and alignment of DNA sequences
7 Nucleotide substitution models, Nucleotide saturation (MEGA and DAMBE)
8 Data set analysis with Neighbor Joining and package programs (MEGA and PAUP)
9 Data set analysis with Maximum Parsimony and package programs (MEGA and PAUP)
10 Data set analysis with Maximum Likelihood and package programs (RAXMLGUI and MrBayes)
11 Data set analysis with Maximum Likelihood and package programs (RAXMLGUI and MrBayes)
12 Bayesian Analysis and data set analysis with package programs (BEAST and FigTree)
13 Bayesian Analysis and data set analysis with package programs (BEAST and FigTree)
14 Network Analysis and data set analysis with package programs (SplitsTree)
Materials
Materials are not specified.
Resources
Course Assessment
Assesment MethodsPercentage (%)Assesment Methods Title
Final Exam50Final Exam
Midterm Exam50Midterm Exam
L+P: Lecture and Practice
PQ: Program Learning Outcomes
LO: Course Learning Outcomes