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FACULTY of ARTS and SCIENCE

Course Title Environmental PollutionDepartment ChemistryDivision in the Dept. Corporate

Code Term Level Type LanguageCredit hours/week

Lecture Lab Credit ECTS CreditKIM 501 Fall Msc Elective Turkish 3 - 3 7Course Prerequisites None

Name of Instructors

Professor. Dr. Mustafa DEMİR

Instructor Information

Adnan Menderes University Faculty of Arts and Science 09100 Aydın Tel:0256 2128498 [email protected]

Course Objective and brief Description

Industrial and urban environmental pollutants and their effects on human and society health

Textbook and Supplementary readings1 Keleş R., Hamamcı C., (1993), Çevrebilim, İmge Kitabevi, Ankara2 Türkiye’nin çevre sorunları, (2003), Türkiye Çevre Sorunları Vakfı Yayını, Ankara3 Erdem Ü. (Edit), (2000), Çevre Bilimi, Ege Üni. çevre sorunları uyg. ve arş. mer. yayınları No:1, İzmir4

COURSE CALENDAR / SCHEDULEWeek Lecture topics Practice/Lab/Field

1 Environment and environmental problems

2 Ecology and ecologic factors

3 Sources of water pollutants

4 Physiological effects of environmental pollutants

5 Social effects of environmental pollutants

6 Health and environment

7 Environmental management

8 Midterm Exam

9 Precaution and dimensions of environmental pollution

10 Environmental problems in Turkey

11 Economical and social results of environmental problems

12 Sources, formation and results of global environmental problems

13 Sources, formation and results of local environmental problems

14 Final ExamCourse assessment will be weighted 40 % for one quiz and 60 % for the final exam. Depending on instructor’s preference, assessment may be by written or/and oral examination, homework, lab assay, projects, group presentation, or a combination of these.


Course Title Computer Usage in ResearchDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTS CreditKIM 507 Fall Msc Elective Turkish 2 2 3 7Course Prerequisites None

Name of Instructors





Aims to acquaint students with computers as tools of information processing and their applications

Textbook and Supplementary Readings1 Bilgisayar Grafikleri, Atılım Çetin, 2003, Seçkin Yayıncılık2 Veritabanı Mantığı, Kerem Köseoğlu, 2005, Pusula Yayıncılık ve İletişim San. Tic.Ltd.Şti.3 Computer Networks and Internets, Douglas E Comer, Ralph E. Droms, 2003, Printice Hall4 Network Systems Design Using Network Processors, Douglas E. Comer, 2005, Printice Hall


1 Computer Hardware Introduction of computer hardware

2 Processor Systems Introduction of computer hardware

3 Internet Internet Usage

4 Online Information Search Internet Usage

5 Graphic Drawing Packages Internet Usage

6 Databases Usage of database in internet

7 Databases Usage of database in internet

8 Midterm Exam

9 Graphic Transformations Usage of database in internet

10 Word Processors Usage of database in internet

11 Evaluation of Data (usage of statistical package programs) Presentation

12 Presentation (PowerPoint package program) PowerPoint presentation

13 Web Design and Presentation in Web Media Design of web page


FACULTY of ARTS & SCIENCES

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Course Title Advanced Analytical ChemistryDepartment ChemistryDivision in the Dept. Analytical Chemistry


Lecture Lab Credit ECTS CreditKIM 511 Fall M.Sc. Obl. Turkish 3 - 3 9Course Prerequisites None

Name of Instructors

Prof. Dr. A. Ersin Karagözler


Adnan Menderes Üniversitesi, Fen-Edebiyat Fakültesi, Kimya Bölümü, 09010 AYDINekaragö[email protected]


The underlying objective of the subjects of this course is to balance the background knowledge of students intending to continue their education in M.Sc. level, especially in analytical chemistry. Principles of various volumetric methods and advanced level pH calculation are treated once more. Furthermore, special emphasis is given to quantitation techniques, interference and problems of trace analysis.

Textbook and Supplementary readings1 Analitik Kimya Temelleri, 7. baskı. D.A. Skoog, D.M. West, F.C Holler. (E. Kılıç ve F. Köseoğlu, translation

editors) Bilim Yayıncılık. Ankara2 Principles of Analytical Chemistry. A Textbook. M. Valcarcel. Springer, 2000. 3 Analytical Chemistry. A Modern Approach to Analytical Science. Eds: R. Kellner, J.M. Mermet, M. Otto, M.

Valcarcel, H.M. Widmer. Wiley-VCH, 2004.4

COURSE CALANDER / SCHEDULEWeek Lecture topics Practice/Lab/Field

1 Significant figures, types of errors and error propagation2 Evaluation of statistical data 3 Principles of chemical analysis4 Titrimetry-General principles5 Equilibrium calculations in complex systems6 Titration of polyprotic acids and bases7 Factors affecting solubility8 Compleximetry9 Redox titrations

10 Quantitative techniques11 Interference and its12 Method choice in analyses13 Special problems in trace analysis14 Student presentations

Course assessment will be weighted 40 % for one quiz and 60 % for the final exam. Depending on instructor’s preference, assessment may be by written or/and oral examination, homework, lab assay, projects, group presentation, or a combination of these.


Course Title Molecularly Imprinted Polymers and Analytical ApplicationsDepartment ChemistryDivision Analytical Chemistry

Code Term Level Level LanguageCredit hours/week

Lecture Lab Credit ECTS credit513 1 (Fall) M.Sc. Elective Turkish 3 0 3 7

Course Prerequisites None

Name of Instructors Assistant Prof. Dr. Cem ESEN


Adnan Menderes University Faculty of Arts ad Sciences 09010 AydinPhone: 0256-212 84 98/ 2207 e-mail: [email protected]


The main objective of this course is to give fundamental principles of molecularly imprinted polymers and their applications in analytical chemistry field.

Textbook and Supplementary readings1 Molecularly Imprinted Polymers:

Man-Made Mimics of Antibodies and their Application in Analytical Chemistry, Elsevier 2001.Edited by B. Sellergren

COURSE CALENDAR / SCHEDULE

Week Lecture topics Practice/Lab/Field1 Fundamental principles of molecular imprinting

2 Covalent imprinting

3 Non-covalent imprinting

4 Imprinting based on metal-coordination

5 Methods for synthesis and characterization of molecularly imprinted polymers

6 Metal ion imprinting technique

7 Metal ion imprinted polymer based solid-phase extraction

8 Mid-term exam

9 Imprinting of biological macromolecules

10 Molecularly imprinted polymer based solid-phase extraction, separation and preconcentration

11 Applications of molecularly imprinted polymers based on high performance liquid chromatography

12 Additional chromatographic applications of molecularly imprinted polymers

13 Sensor applications of molecularly imprinted polymers

14 Final exam

Course assessment will be weighted 40 % for one mid-term exam and 60 % for the final exam. Depending on instructor’s preference, assessment may be by written or/and oral examination, homework, lab assay, projects, group presentation, or a combination of these.

FACULTY of ARTS AND SCIENCE

Course Title Sample Preparation for AnalysisDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTS CreditKIM 515 Fall Msc Elective Turkish 3 - 3 7Course Prerequisites None

Name of Instructors





Basic information about the samples according to their solid, liquid, gas, organic, inorganic and biologic physical states and to the preparation of their applied instrumental methods

Textbook and Supplementary readings1 Somenath Mitra (2003), Sample Preparation Techniques in Analytical Chemistry, Wiley & Sons Publication234


1 Principles of extraction and enrichment in sample preparation

2 Principles of extraction and the extraction of semivolatile organics from liquid

3 Liquid–liquid extraction, liquid–solid extraction

4 Solid-phase extraction, solid-phase microextraction

5 Extraction of semivolatile organic compounds from solid matrices

6 Soxhlet extraction, ultrasonic extraction

7 Supercritical fluid extraction, microwave-assisted extraction

8 Midterm Exam

9 Extraction of volatile organic compounds from solids and liquids

10 Preparation of samples for metal analysis

11 Wet digestion methods, microwave digestion and dry ashing for metal analysis

12 Organic extraction of metals, extraction with supercritical fluids for metal analysis

13 Ultrasonic sample preparation, solid-phase extraction for preconcentration


FACULTY OF SCIENCE AND ARTS

Course Title Advanced Organic Chemistry

Department Chemistry

Division in the Dept. Organic Chemistry


Lecture Lab Credit ECTS CreditKİM 521 1 (Fall) MSc Obl. Turkish 3 0 3 9


Name of Instructors

Assoc. Professor. Dr. Yüksel Şahin


Adnan Menderes University Science and Arts Faculty 09100 AydınTel: 256 2128498 \ 2204 [email protected]


To prepare the student to postgraduate studies in organic chemistry. To make the studens to have a decision about reaction conditions of organic reactions. Learning how to organic reactions proceed, including reaction conditions. Learning how to choise of starting materiels and methods to go to the products.

Textbook and Supplementary readings

1 Carey, F.A., Sundberg, R.J., Advanced Organic Chemistry; Part A and Part B, Plenum Pres, New York, 1991

2 Miller, B., Advanced Organic Chemistry; Prentice-Hall, Inc., New Jersey, 1998.


1 Molecular orbital teori

2 Stereochemical principles

3 Conformational and steric effects

4 Metots of determination of reaction mechanisms

5 Analyses of kinetic data and thermodinamic data

6 Solvent effects

7 Addition reactions

8 Midterm Exam

9 Elimination reactions

10 Condensasion reactions

11 Oxidation and reduction reactions

12 Radicalic reactions

13 Rearrangement reactions

14 Final Exam


FACULTY of SCIENCE AND ART

Course Title Chemistry of Boron CompoundsDepartment ChemistryDivision in the Dept. Coorparate


Lecture Lab Credit ECTS CreditKIM523 Fall MS.c Elective Turkish 3 - 3 7Course Prerequisites Non

Name of Instructors



Adnan Menderes university Faculty of Science&Art 09100 Aydin Tel:0256 2128498 [email protected]


This course emphasizes the understanding of chemical reactions through atomic and molecular structure elemental boron and their compounds. In addition to explore basic concepts and principles of boron compounds and their applications in chemistry and closely-related fields

Textbook and Supplementary readings1 E. Riedel (2004) Anorganische Chemie, Walter de Gruyter Berlin-New York.2 C. Elschenbroich, A.Salzer (1992), Organometallics, VCH .3 G.L, Miessler, D.A., Tarr (1999), Inorganic Chemistry, Prentice-Hall.4 N.Wiberg, A.F.Holleman, E. Wiberg (2001) Inorganic chemistry, Walter de Gruyter Berlin-New York.


1 An introduction to 13 groups chemistry

2 An introduction of Boron

3 Boron oxides and Borates

4 Boron halides

5 Metalloborid and Boroncarbide

6 Boron-Nitrogen compounds

7 Boron hydrides

8 Midterm exam

9 Organoborans

10 Boron Heterocycles

11 Metalloborans

12 Polyhedral borans

13 B11 NMR Spectroscopy


FACULTY of ART and SCIENCE

Course Title Synthesis Technics and Organic Analysis




Lecture Lab Credit ECTS Credit

KİM 525 1 (Fall) Master Elective English 3 0 3 7

Course Prerequisites none

Name of Instructors

Asist.Prof.Dr. İlknur BABAHAN


[email protected] Menderes Üniversity, Faculty of Art and Science, Department of Chemistry, Organic Chemistry Division, 09010, Aydın-TURKEY.


To prepare the student to postgraduate studies in organic synthesis. To make the students to have a decision about reaction conditions of organic reactions. Learning how to organic reactions proceed, including reaction conditions. Learning how to choise of starting materials and methods to go to the products.

Textbook and Supplementary readings1 Furniss, B.S., Practical Organic Chemistry (Fifth Edition), New York, 1991.

2 Sharp J.T., Practical Organic Chemisrty; Chapman & Hall, London, 1991


1 General methods for purification of organic compounds

2 Organic analysis

3 Reaction of functional groups of organic compounds

4 Drying and cleaning of organic solvents

5Organic preparates ( Reaction of aldehydes and ketones with alcohols, Reaction

of carboxylic acids and anhydrides with alcohols in acids media

6 Organic preparates (Reaction of anhydrides and chlorides of carboxylic acids with carboxylic acids)

7 Organic preparates ( Reaction of carbon nucleophiles with carboxylic acid ester

8 Midterm exam

9 Organic preparates ( Reaction of carbon nucleophiles with carbon dioxide

10 Organic preparates (Preparation of acid chlorides)

11 Organic preparates ( Reaction of aldehydes and ketones with ketones as CH- acid)

12 Organic preparates (Reaction of halogens and ketones with aromatic compounds)

13 Organic preparates ( Reaction of diazonium salts with aromatic compounds)



Course Title Advanced Inorganic Chemistry


Division in the Dept. Inorganic Chemistry


Lecture Lab Credit ECTS CreditKİM 531 1 (Fall) MSc Obl. Turkish 3 0 3 9


Name of Instructors

Asst. Prof. Dr. Nursabah SARIKAVAKLI


Adnan Menderes University Faculty of Science & Arts Chemistry Department Biochemistry Division 09010 Aydın, Telephone: +90 256 2128498 Office: 2207, [email protected]


To learn the structure of atom and molecule: to know how to occur the chemical bonds.

Textbook and Supplementary readings1 Miessler, G. L., Tarr, D. A. (Çeviri Editörleri: Karacan, N., Gürkan, P.) (2002) İnorganik Kimya. Palme Yayınları-Ankara2 Shriver, D.F., Atkins, P. W. Langford, C. H.,(2000) Inorganic Chemistry, Oxford Chemistry3 Housecroft, C.E., Sharpe A.G., (2001) Inorganic Chemistry, 1st Ed, PrenticeHall4 Huheey, J.E., Keiter E.A., Keiter R.L., (1993) Inorganic Chemistry, 4th Ed., Harper Collins


1 Electromangnetic Radiations, Photoelectric Effect

2 Bohr atom theory

3 Wave-particle duality, Schrödinger equation,

4 Quantum mechanics, Particle in a Box, Hydrogen atoms

5 Quantum Numbers, Atomic Wave Functions

6 Aufbau Principle, Periodic table, Shielding

7 Periodic properties of atoms

8 Midterm Exam

9 Valence Bond Theory (VBT)

10 Lewis Electron Dot Diagrams, Formal Charge, Resonance

11 Valence Shell Electron Pair Repulsion Theory (VSEPR)

12 Electronegativity, Polar Bonds

13 Molecular Orbital Theory (MOT)

14 Hydrogen Bonding

Final ExamCourse assessment will be weighted 40 % for one quiz and 60 % for the final exam. Depending on instructor’s preference, assessment may be by written or/and oral examination, homework, lab assay, projects, group presentation, or a combination of these.


Course Title Point Groups and Applications


Division in the Dept. Inorganic


Lecture Lab Credit ECTS CreditKİM 533 1 (Fall) MSc Selective Turkish 3 0 3 7


Name of Instructors

Asst. Prof. Dr. M. Emin GÜNAY


Adnan Menderes University Faculty of Science & Arts, Chemistry Department Inorganic Division 09010

Aydın, Telephone: +90.256.212 84 98 Office: 2106, [email protected]


To learn the point groups, group theory and their applications

Textbook and Supplementary readings1 F.A. Cotton, “Chemical Applications of Group Theory”, Wiley-interscience


1 Definition of group theory

2 Classes and aquivalent atoms

3 Symmetry elements and symmetry operations

4 Point groups

5 Great Ortogonality theorem and character tables

6 Direct products and selection rules

7 Projection operators and symmetry adapted linear combinations

8 Midterm Exam

9 Applications-optical isomerism, polarity

10 Hybrit orbitals

11 Molecular vibrations, IR and Raman activity

12 Ligand Field Theory

13 Molecular orbitals

14 Final Exam

Course assessment will be weighted 40% for one quiz and 60% for the final exam. Depending on instructor’s preference, assessment may be by written or/and oral examination, homework, lab assay, projects, group presentation, or a combination of these.


Course Title Magnetic Properties of Compounds




Lecture Lab Credit ECTS CreditKİM 535 1 (Fall) MSc Selective Turkish 3 0 3 7


Name of Instructors






Magnetic properties of matter, ferro-, ferri-, and anti-ferromagnetism; diamagnetic and paramagnetic

substances, the fundamental quantities in the description magnetic behavior, measurement of magnetic

quantities.

Textbook and Supplementary readings1 Cotton and Wilkinson, “Advanced Inorganic Chemistry”, Fourth Edition


1 Atomic diamagnetism

2 Molecular diamagnetism

3 Diamagnetism of ions

4 Atomic paramagnetism

5 Molecular paramagnetism

6 Ferromagnetism

7 Anti-ferromagnetism

8 Midterm Exam

9 Magnetic properties of transition metal complexes

10 Magnetic susceptibility

11 Determination of magnetic susceptibility

12 Magnetic moments from magnetic susceptibility

13 Applications

14 Final Exam


FEN EDEBİYAT FAKÜLTESİ

Dersin Adı: Catalyst

Bölümü Chemistry

Anabilim Dalı Inorganic

Kodu Dönemi Düzeyi Türü DiliKredi saat/hafta

Teorik Uyg. Kredisi ECTS kredisiKİM 537 Fall MSc Selective Turkish 3 0 3 7Ön Koşul Dersi None

Dersi veren Öğretim Üyeleri


Yazışma ve Eposta adresi



Dersin amacı ve kısa tanıtımı

The subject of this course is the molecular approach in the development of catalysts for applications in

laboratory and industry. Emphasis will be on transition metal catalyzed reactions. Important aspects like

mechanistic studies, kinetics, and effects of the nature of the metal ion and ligand structure will be

explained.

Dersin Kitabı ve Yararlanılacak Diğer Kaynaklar1 P.W.N.M. van Leeuwen, Homogeneous Catalysis, Kluwer Academic Publishers, Dordrecht 2004

DERS İŞLEME PLANIHafta Teorik Uygulama/Laboratuvar/Tarla

1 Definition of catalyst

2 Properties of catalyst

3 Homogenous catalysis

4 Heterogeneous catalysis

5 Catalytic cycle

6 Factors effects on catalyst activity

7 Asymmetric transfer hydrogenation

8 Ara Sınav

9 Rhodium-catalysed hydroformylation

10 Homogenous catalysis by transition metal complexes

11 Cross-coupling reactions

12 Palladium catalysts for C-C, C-N and C-O Bond formation

13 Important industrial catalysis

14 Yarıyıl sonu sınavı


FACULTY of ARTS&SCIENCES

Course Title Advanced Polymer Chemistry

Department ChemistryDivision in the Dept. Chemistry


Lecture Lab Credit ECTS CreditKIM 541 I-FALL Ms Elective Turkish 3 - 3 7Course Prerequisites

Name of Instructors Prof. Dr. Erdener KARADAĞ

Instructor Information Adnan Menderes University Chemistry Department 09010 Aydın, Turkey


This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of polymer chemistry. Advanced synthesis and some special polymeric reactions have been coursed in this lecture.

Textbook and Supplementary readings1 The Elements of Polymer Science and Engineering, Alfred Rudin, Academic Press, Inc. 1982.2 Introduction to Polymer Chemistry, Raymond B. Seymour, McGraw-Hill Kogakuska, 1971


1 Introduction

2 Terminology, Classification

3 Polymer synthesis

4 Radical polymerization.

5 The principals of polymerization

6 Complex polymerization

7 Ionic polymerization

8 Quiz

9 Steric polymerization

10 Cationic polymerization

11 Inititaion polymerization

12 Transfer reactions

13 Polymerization by Ziegler-Natta catalysts



Course Title Chemical ThermodynamicsDepartment Chemistry

Division in the Dept. Chemistry


Lecture Lab Credit ECTS CreditKIM 545 I-Fall YL Elective Turkish 3 - 3 7Course Prerequisites




This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of Chemical Thermodynamics.

Textbook and Supplementary readings1 Physical chemistry, Gilbert W. CASTELLAN, Addison-Wesley Publishing, World Student series edition, 1980,2 Kimyasal Termodinamik, Namık. K. Tunalı, Baylan R. Türkmen, ODTÜ FEF Yayınları No; 32, ODTÜ, Ankara


1 Heat, work and energy

2 Thermodynamic equilibrium and thermodynamic properties

3 The first law of thermodynamics

4 Energy, Entalphy and Heat capacities

5 The hess’s law, Standart entalphy chancing, Bonding energy

6 The second law of thermodynamics, Reversible transformations, Entropy

7 Quiz

8 Carnot cycle, The residual entropy

9 Free energy and Chemical Equilibrium

10 Mixtures and free energy

11 The chancing of free energy at chemical reactions

12 Equilibrium constant and chancing with temperature

13 Colligative properties


FACULTY of ARTS and SCIENCES

Course Title Advanced BiochemistryDepartment Chemistry

Division in the Dept. Biochemistry


Lecture Lab Credit ECTS CreditKİM 553 I. Fall MSc Obl. Turkish 3 0 3 9Course Prerequisites None

Name of Instructors

Assoc. Prof. Dr. A. Alev Karagözler


Adnan Menderes Üniversitesi, Fen-Edebiyat Fakültesi, Kimya Bölümü, 09010 [email protected]


This course is intended to provide the students with a thorough grounding in biochemistry. The subjects of the course are chosen to give a brief knowledge of biochemistry to beginning graduate students.

Textbook and Supplementary readings1 Lehninger Principles of Biochemistry, 2004 D.L. Nelson, M.M. Cox, W.H.Freeman ISBN 07167433962 D.Voet, J.G. Voet, Biochemistry, 1995, John Wiley ISBN 047158651X3 Biyokimya cilt I-II. 2001, Gözükara E. M., Nobel Tıp Kitabevleri, İstanbul


1 Introduction to Biochemistry

2 Amino acids and Proteins

3 Enzymes, Coenzymes and Vitamins

4 Carbohydrates

5 Nucleic acids

6 Lipids

7 Introduction to Metabolism and Energetics

8 Carbohydrate Metabolism

9 Lipid Metabolism

10 Protein Biosynthesis and Destruction

11 Nucleic acid Biosynthesis and Destruction

12 Regulation of Metabolism

13 Photosynthesis

14 Membrane transport

Course assessment will be weighted 40 % for one midterm exam and 60 % for the final exam. Midterm is applied as the mean of the grades taken from one oral and one written presentation. Final is applied as a comprehensive written exam.


Course Title Fundamentals of EnzymologyDepartment ChemistryDivision in the Dept. Biochemistry

mailto:[email protected]


Lecture Lab Credit ECTS CreditKİM 555 I. Fall MSc Elective Turkish 3 0 3 7Course Prerequisites None

Name of Instructors





The aim of this course is to give a broad account of enzymology. The ultimate goal of the course is to point out the crucial role that enzymes play in the metabolic processes of living organisms.

Textbook and Supplementary readings1 Fundamentals of Enzymology, 1999. Nicholas C. Price, Lewis Stevens. Oxford University Pres, USA. ISBN

019850229.2 Fundamentals of enzymology unpublished Lecture notes (in Turkish). Assoc. Prof. Dr. A. Alev Karagözler.


1 Introduction to enzymology.

2 The purification of enzymes.

3 The structure of enzymes.

4 Introduction to enzyme kinetics.

5 Mechanism of enzyme action.

6 Control of enzyme activity.

7 Enzymes in organized systems.

8 Enzymes in organized systems.

9 Enzymes in the cell.

10 Enzymes in the cell.

11 Enzyme turnover and its significance.

12 Clinical aspects of enzymology.

13 Enzyme technology.

14 Immobilized enzymes.Course assessment will be weighted 40 % for one midterm exam and 60 % for the final exam. Midterm is applied as the mean of the grades taken from one oral and one written presentation. Final is applied as a comprehensive written exam.

FACULTY OF SCIENCE AND ARTS Course Title Enzyme Biotechnology






KİM 557 1 (Fall) YL Elective Turkish 3 0 3 7


Name of Instructors Assoc. Prof. Dr. Sinan AKGÖL


Adnan Menderes University Faculty of Science & Arts Chemistry Department Biochemistry Division 09010

Aydın, Telephone:+90256 2128498 Office: 2208, [email protected]


This course aims teach basic definitions, biotechnology techniques, applications of biotechnology,

enzymes, enzymes in biotechnological applications, types of enzymes, enzyme biotechnology in the

paper industry, enzyme biotechnology and textiles, enzyme biotechnology and biofuels, traditional-modern

biotechnology

Textbook and Supplementary readings1 Biochromatography, MA Vijayalakshmi, Taylor and Francis, 2002.

2 Instructor notes


1 Basic definitions

2 Biotechnology techniques

3 Applications of biotechnology

4 Enzymes

5 Effective factors on enzymatic activity

6 Enzymes in biotechnological applications

7 Types of enzymes

8 Midterm Exam

9 Enzyme biotechnology in the paper industry

10 Enzyme biotechnology and textiles

11 Enzyme biotechnology and biofuels

12 Traditional modern biotechnology

13 Current research areas

14 Final Exam


FACULTY OF SCIENCE AND ARTS Course Title Biotechnology and Biomedicine



Code Term Level Type Language Credit hours/week


KİM 559 1 (Fall) MSc Elective Turkish 3 0 3 7







Description and research areas of Biomedicine Engineering, Biochemistry Engineering and Genetic

Engineering. Teach the purification of plazma proteins and separation of different biomaterials by

biotechnological separation methods as affinity.

Textbook and Supplementary readings1 Instructor notes


1 General information, historical aspects and description of Biotechnology

2Description and research areas of Biomedicine Engineering, Biochemistry

Engineering and Genetic Engineering.

3Research areas about human health of Biomedicine Engineering, Biochemistry


4Research areas about agriculture of Biomedicine Engineering, Biochemistry


5Market of biological product, Different fermentors and fermentor designing for

production of biological product.

6Market of biological product, Different fermentors and fermentor designing for

production of biological product.

7Production and purification of diagnostically and therapeutically important

biomaterials in bioreactors.

8 Midterm Exam

9 Polymer application in recombinant DNA processess.

10 Separation technologies about purification of plazma proteins

11 Chromatographic Techniques

12 Affinity Chromatography

13 What might be in the future?

14 Final Exam


FACULTY OF SCIENCE AND ARTS Course Title Biochromatography





KİM 561 1 (Fall) MSc Elective Turkish 3 0 3 7


Name of Instructors Asst. Prof. Dr. Sinan AKGÖL


Adnan Menderes University Faculty of Science & Arts Chemistry Department Biochemistry Division 09010 Aydın, Telephone:+90256 2128498 Office: 2208, [email protected]


This course aims teach the upstream and downstream steps in biochromatography, different biochromatographic methods especially affinity chromatography, industrial biochromatography, biochromatography and biomedical applications.


2 Instructor notes


1 Upstream and downstream steps in biochromatography

2 Gel filtration

3 Ion Exchange interaction biochromatography

4 Hydrophobic (interaction) chromatography of proteins

5 Affinity chromatography

6 Dye ligand affinity chromatography

7 Immobilized histidine ligand affinity chromatography

8 Midterm Exam

9 Immobilized metal-ion affinity chromatography:

10 Thiophilic interaction chromatography

11 Glycobiology and biochromatography

12 Imprinted polymers as tailor-made stationary phases for affinity separation

13 Industrial biochromatography, biochromatography and biomedical applications

14 Final Exam



Course Title Environmental ChemistryDepartment ChemistryDivision in the Dept. Corporate



KIM 506 Spring Msc Elective Turkish 3 - 3 7Course Prerequisites None

Name of Instructors





The course is designed to offer chemistry students a thorough knowledge and understanding of a wide range of environmental problems; their causes and effects and how to control them. The course covers chemical cycles, water pollution and water treatment, the atmosphere and atmospheric pollutants-both organic and inorganic gases-the ozone layer, the global warming, acid rain, photochemical smog and soil chemistry. It also covers the nature and sources of hazardous wastes, their chemistry and toxicological effect. The role of technology in both creating and solving environmental problems will be discussed whenever appropriate.

Textbook and Supplementary readings1 Stanley E. Manahan (1993), Fundamentals of environmental chemistry, Lewis Publishers234


1 Principles of environmental chemistry

2 Environment and ecology

3 Environmental chemistry of water and chemical equilibrium

4 Water treatment

5 Sediments and the nature of solids

6 Soil pollution and chemical reactions in soil

7 Atmosphere and atmospheric chemistry

8 Midterm Exam

9 Inorganic air pollutants

10 The nature and sources of hazardous substances and environmental chemistry

11 Toxicological chemistry

12 Global warming and green effect gases

13 Acid rain and destruction of ozone layer



Course Title Environmental StandardsDepartment ChemistryDivision in the Dept. Corporate



KIM 508 Spring Msc Elective Turkish 3 - 3 7Course Prerequisites None

Name of Instructors





Learning the law ,regulations and standards about environment. Comparison of standards in Turkey and in Europen Union.

Textbook and Supplementary readings1 Türk Çevre Mevzuatı, Türkiye Çevre Vakfı Yayınları: 2 cilt2 Franson M. A. H. (1995), Standard Methods, APPA 34


1 Environment and environmental problems

2 Turkish Environmental Law

3 Standardization

4 Air quality law and regulations

5 Air quality standarts

6 Water quality law and regulations

7 Water quality standards

8 Midterm Exam

9 Soil quality law and regulations

10 Soil quality standards

11 Food quality law and regulations

12 Food quality standards

13 United Nations and Europen Union environmental standards



Course Title Seperation Methods in ChemistryDepartment ChemistryDivision in the Dept. Analytical Chemistry

Kod Dönem Level Type LanguageCredit hours/week

Lecture Lab Credit ECTS CreditKIM 510 Spring M.Sc Obl. Turkish 3 0 3 9


Name of Instructors



Adnan menderes Üniversitesi, Fen-Edebiyat Fakültesi, Kimya Bölümü, 09010 AYDINekaragö[email protected]


The main objective of this course is to give fundamental principles of separation science, with special emphasis on chromatography. Counter current extraction or other partition processes will be dealt with in their relation to chromatography. Afterwards, the basic principles and instrumentation of each chromatographic technique will be discussed. Hyphenated methods will also be thought.

Textbook and Supplementary readings1 Chromatography and Separation Science. S. Ahuja. Academic Press, 20032 Introduction to Separation Science. B.L. Karger, R.L. Snyder, C. Horvath. John Wiley & Sons; 19733 Analytical Chemistry. A Modern Approach to Analytical Science. Editörler: R. Kellner, J.M. Mermet, M.

Otto, M. Valcarcel, H.M. Widmer. Wiley-VCH, 2004.4


1 Simple separation methods2 Equilibrium processes and molecular basis in separation3 Mass transport and separation4 Liquid-liquid extraction5 Chromatographic Theory6 Qualitative and quantitative analysis7 Gas chromatography8 Capillary column gas chromatography9 Liquid chromatography

10 Liquid chromatography instrumentation11 Paper and thin layer chromatography12 Hyphenated methods13 Electrophoresis14 Student presentations



Course Title Avanced Electroanalytical ChemistryDepartment ChemistryDivision in the Dept. Analytical Chemistry


Lecture Lab Credit ECTS CreditKIM 512 Spring M.Sc. Elective Turkish 3 0 3 7


Name of Instructors





Modern electroanalytical techniques are classified as they are related to static and dynamic processes. The use and meaning of fundamental equations of electrochemistry are dealt with in relation to particulars of each technique. The difference in measurement systems of potentiometry and voltammetry are accented and electrodes used in each technique are presented.

Textbook and Supplementary readings1 Fundementals of Electroanalytical Chemistry. P. Monk. John Wiley& Sons, 20022 Analytical Electrochemistry.Second Ed. J. Wang. Wiley-VCH, 20003 Electroanalysis. C.M.A. Brett, A.M.O.Brett. Oxford University Press, 1998.4


1 Nomenclature and terminology2 Equilibrium and dynamic measurements3 Potentiometry4 Dynamic electrochemistry and chronoamperometry5 Coulometry and Faraday Laws6 Polarography at mercury electrodes7 Linear sweep and cyclic voltammetry at solid electrodes8 Pulse methods9 Stripping voltammetry

10 Convective systems. Rotating disk electrode11 Flow ceels and wall-jet electrodes12 Rate constants of electron transfer13 Electrode preparation and microelectrodes14 Student presentations



Course Title Analytical Chemistry of MetalsDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTS CreditKIM 514 Spring Msc Elective Turkish 3 - 3 7Course Prerequisites None

Name of Instructors Professor. Dr. Mustafa DEMİR




Fundamental techniques about the determination of metals in industrial products such as ores and alloys and also techniques about the determination of trace metals in environmental and biological systems

Textbook and Supplementary readings1 Rock and Mineral analysis, J.A.Maxwell, Interscience Publishers, Newyork, 1968 2 Methods for Environmental Trace Analysis, J.R.Dean, John Wiley and Sons, 20033 Photometric determinations of trace metals, E.B.Sandell, H.Onishi, John wiley and sons, 19784


1 Introduction to metal chemistry

2 Ore analysis

3 Zinc - copper chemistry and alloy analysis

4 Antimony – aluminum chemistry and alloy analysis

5 Chromium – iron chemistry and alloy analsis

6 Lead – manganese – boron chemistry and alloy analysis

7 Steel analysis

8 Midterm Exam

9 Silica – copper – nickel analysis in steel

10 Tin – lead - copper analysis in brass, bronze and solder

11 Iron – zinc – aluminum analysis in brass, bronze and solder

12 Trace metal analysis

13 Trace metal analysis



Course Title Ionic EquilibriaDepartment ChemistryDivision in the Dept. Analytical Chemistry


Lecture Lab Credit ECTS CreditKIM 516 Spring M.Sc Elective Turkish 3 0 3 7Course Prerequisites None

Name of Instructors





Ionic equilibria in aqueous solutions are examined, from the points of qualitative and quantitative analysis, at a more advanced level thought at undergraduate level. Carbon dioxide equilibria in ecosystems and pH diagrams in brines are treated in detail. The automated calculations are exemplified using computer programs.

Textbook and Supplementary readings1 Ionic Equilibrium: Solubility and pH Calculations. J.N. Butler. John Wiley & Sons, 19982 Qualitative Analysis with Ionic Equilibrium. R.K. Wismer. MacMillan Publishing Co., 1991 34


1 Basic principles2 Activity coefficients and pH3 Systematic treatment of equilibrium4 Strong acids and bases5 Monoprotic acidsand bases6 Polyprotic acids and bases7 Solubility8 Complex formation9 Organic complexes

10 Oxidation-reduction equilibria11 Carbon dioxide12 pH in brines13 Outomated computation methods14 Student presentations



Course Title Analytical SpectrometryDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTS CreditKIM 518 Spring Msc Elective Turkish 3 - 3 7Course Prerequisites None

Name of Instructors





Fundamentals of atomic and molecular spectrometry and introduction of the instruments used in spectrometry

Textbook and Supplementary readings1 L. de Galan, 1971, Analytical Spectrometry, Adam Hilger Ltd, London2 W.J. Price, 1979, Spectrochemical Analysis by Atomic Absorption, Heyden and Son Ltd34


1 Introduction to spectrometry

2 Atomic emission spectrometry

3 Atomic absorption spectrometry

4 Atomic fluorescence spectrometry

5 Inductively coupled plasma spectrometry

6 Molecular spectrometry

7 UV/Vis spectrometry

8 Midterm Exam

9 Turbidimetry and nephelometry

10 Infrared spectrometry

11 X-ray spectrometry

12 Nuclear magnetic resonance spectrometry

13 Mass spectrometry



Course Title Organic Dyes




Lecture Lab Credit ECTS CreditKİM 524 2 (Spring) MSc Elective Turkish 3 0 3 7


Name of Instructors

Yrd. Doç.Dr. Fatih EYDURAN




To learn the chemical structures and synthetic methods of organic dyes and to provide a basis for

understanding application and properties of dyes. To provide a background for chemistry and applications of

organic dyes.


12

Zollinger, H., Color Chemistry, Wiley-VCH, Zürich, 2003.

Zollinger, H., Color; A Multidisciplinary Approach, Wiley-VCH, Zürih, 1999.


1 Classification and synthesis of dyes

2 Synthesis of dye intermediates

3 Synthesis and properties of azo dyes

4 Synthesis and properties of anthraquinone dyes

5 Synthesis and properties of vat and indigoid dyes

6 Synthesis and properties of pthalocyanine dyes

7 Synthesis and properties of polymethine dyes

8 Midterm Exam

9 Synthesis and properties of di- and tri-arylcarbonium dyes

10 Examination of spectral properties of dyes.

11 Relationship between color and constitution

12 Explaination of colors with valans and molecular orbital teori

13 Photochromism

14 Final Exam


FACULTY of SCIENCE and ARTS

Course Title Spectroscopic TechniquesDepartment ChemistryDivision in the Dept. Corparate


Lecture Lab Credit ECTS CreditKIM 526 Spring Msc Obl. Turkish 3 - 3 9Course Prerequisites None

Name of Instructors

Assoc. Professor. Dr. Yüksel ŞAHİN





This lecture course teaches students how to use modern spectroscopic techniques for the structural characterization of molecules. Lecture sessions will cover topics in the theory and practical applications associated with, UV-VIS, infrared absorption spectroscopy, and Nuclear Magnetic Resonance Spectroscopy (1H, 13C, and 2D experiments). Students will apply all of these techniques in the lesson (principally NMR) for the structural characterization of known and unknown molecules.

Textbook and Supplementary readings1 Spektroskopische Methoden in der organischen Chemie, M. Hesse, H. Meier, B. Zeeh, G. T. Verlag Stuttgart2 Spectroscopic Identification of Organic Compounds, R. M. Silverstein, F. X. Webster, Wiley, 1998.34


1 Introduction to spectroscopy

2 UV spectroscopy

3 IR spectroscopy

41H NMR Spectroscopy

51H NMR Spectroscopy

6 Midtern Exam

713C NMR Spectroscopy



10 2D NMR Spectroscopy

11 ESR Spectroscopy

12 MS Spectroscopy

13 X-RAY Spectroscopy



Course Title Coordination Chemistry




Lecture Lab Credit ECTS CreditKİM 532 II (Spring) MSc Optional Turkish 3 0 3 7


Name of Instructors


Instructor Adnan Menderes University Faculty of Science & Arts Chemistry Department Biochemistry Division 09010

Information Aydın, Telephone:+90256 2128498 Office: 2207, [email protected] Objective and brief Description

This course follows “Coordination Compounds” which deal with the thermodynamic and spectroscopic properties of inorganic complexes and will deal with the ways in which such complexes react.

Textbook and Supplementary readings1 Tunalı N.K., Özkar, S., (1999) Anorganik Kimya, Gazi Üniversitesi Yayınevi2 Gündüz, T. (1994) Koordinasyon Kimyası, Ankara Üniversitesi, Fen Fakültesi3 Shriver D.F., Atkins P. W., Langford C. H., (1991) Inorganic Chemistry, Oxford Chemistry 4 Miessler G.L., Tarr D.A., (1999) Inorganic Chemistry, PrenticeHall, 5 Housecroft C.E., Sharpe A.G., (2001) Inorganic Chemistry, 1st Ed, PrenticeHall 6 Huheey J.E., Keiter E.A., Keiter R.L., (1993) Inorganic Chemistry, 4th Ed., Harper Collins 7 Arthur E. Martell, , (1978) Coordination Chemistry, Volume 1-2, Texas AM University College Station, Texas


1 Transition metals: Titanium, Vanadium, Niobium and Tantalum, Chromium, Manganese, Iron-Cobalt-Nickel,, precious metals.

2 Coordination compounds

3 Structure and İsomerism

4 Ligands

5 Nomenclature of coordination compounds and ligands

6 Chemicals bonding in coordination compounds

7 Valence bond theory (VBT)

8 Midterm Exam

9 Crystal field theory (CFT)

10 Ligand field theory (LFT)

11 Molecular orbital theory MOT)

12 Electronical transitions in coordination compounds

13 Magnetic properties of coordination compounds



Course Title Metal Organic Compounds




Lecture Lab Credit ECTS CreditKİM 534 2 (Spring) MSc Selective Turkish 3 0 3 7


Name of Instructors


Instructor Adnan Menderes University Faculty of Science & Arts, Chemistry Department Inorganic Division 09010

Information Aydın, Telephone:+90.256.212 84 98 Office: 2106, [email protected]


This course examines important transformations of organotransition-metal species with an emphasis on basic

mechanisms, structure-reactivity relationships, and applications in organic synthesis.

Textbook and Supplementary readings1 C. Elschenbroich, A. Salzer, Organometallics, A Consice Introduction, VCH, 1992


1 Overview of organometallic chemistry

2 Fundamental of structure and bonding

3 18-Electron rule

4 Carbon metal and nitrogen metal organics

5 Main group organometallic compounds

6 Transition metal organics

7 -donor/-acceptor ligands

8 Midterm Exam

9 Organometallic reactions

10 Homogeneous catalysis

11 Structure of metal-carbene and metal-carbyne complexes

12 Spectral analysis and characterization of organometallic complexes

13 Applications of organometallic chemistry

14 Final Exam


Course Title Inorganic Cyclic Compounds




Lecture Lab Credit ECTS CreditKİM 536 II (Spring) MSc Optional Turkish 3 0 3 7


Name of Instructors




Course Objective and

The aim of this course is to study some basic group elements of the compounds having cyclic inorganic structure showing paralelism with organic chemistry.

brief Description

Textbook and Supplementary readings1 Tunalı, N. K. ve Özkar, S., (1999)Anorganik kimya, Gazi Kitabevi, Ankara2 Shriver D.F., Atkins P. W., Langford C. H., (1991) Inorganic Chemistry, Oxford Chemistry 3 Miessler G.L., Tarr D.A., (1999) Inorganic Chemistry, PrenticeHall4 Housecroft C.E., Sharpe A.G., (2001) Inorganic Chemistry, 1st Ed, PrenticeHall5 Huheey J.E., Keiter E.A., Keiter R.L., (1993) Inorganic Chemistry, 4th Ed., Harper Collins


1 Borazines

2 Borazines compounds

3 Boron-cages compounds

4 Carboranes

5 Cyclic phosphazenes

6 Cyclic nitrogen-sulphur compounds (thiazenes),

7 Homocyclic systems

8 Midterm Exam

9 Heterocyclic systems

10 Crown ethers

11 Crown ethers complexes

12 The chemistry of macrocyclic ligands

13 The chemistry of macrocyclic ligand complexes

14 Final Exam



Course Title Advanced Physical ChemistryDepartment ChemistryDivision in the Dept. Chemistry


Lecture Lab Credit ECTS CreditKIM 540 II-Spring Ms Obl. Turkish 3 - 3 9Course Prerequisites



Course This lecture is designed to provide a solid background for students who intend to go on

Objective and brief Description

to the graduate study and a thorough background in the fundamentals of physical chemistry. Experimental applications of the chemical kinetics and the principals of the chemical kinetics have been coursed in this lecture.

Textbook and Supplementary readings1 Physical Chemistry, P. W. ATKINS, Oxford University Press2


1 Fundamental Chemical Concepts, The ideal gas law

2 Kinetic theory of gases, Real gases

3 The critical state, Liquids, The critical temperature, Vaporization

4 Surface tension, Solids, X-rays diffraction

5 The laws of thermodynamics, The zeroth, the first, the second and the third law of thermodynamics

6 Property of entropy and probability

7 The structure of matter

8 Quiz

9 The principals of mixture systems

10 Thermo chemistry, Chemical equilibrium and free energy.

11 Phase diagrams and physical equilibrium, Liquid-solid-vapor equilibriums, General characteristics of the solutions

12 Colloids, The principals of the chemical kinetics

13 Experimental applications of the chemical kinetics



Course Title Polymer MixturesDepartment ChemistryDivision in the Dept. Chemistry


Lecture Lab Credit ECTS CreditKIM 544 II-Spring YL Elective Turkish 3 - 3 7Course Prerequisites



Course Objective and This lecture is designed to provide a solid background for students who intend to go on

brief Descriptionto the graduate study and a thorough background in the fundamentals of polymer mixtures and for characterization of polymer chemistry.

Textbook and Supplementary readings1 Physical Chemistry of Polymers, A. TAGER, MIR Publishers, 1978, MOSCOW2


1 Polymers in solutions

2 Compatibility of polymers in solutions

3 Determination of mutual solubility of polymers

4 Structure of polymer mixtures

5 Determination of glassy-transition temperatures of polymer mixtures

6 Three component systems, Polymer compatibility determined by various methods

7 Thermodynamics of binary polymer-polymer systems

8 Quiz

9 Mechanical properties of polymer mixtures

10 Enthalpy of mixing of two polymers

11 Free energy of mixing of polymers

12 Entropy of mixing of two polymers

13 Phase diagrams of polymer-polymer systems



Course Title Biochemical TechniquesDepartment ChemistryDivision in the Dept. Biochemistry


Lecture Lab Credit ECTS CreditKİM 554 II. Spring MSc Elective Turkish 3 0 3 7Course Prerequisites None

Name of Instructors





This course is intended to provide the graduate student a brief knowledge of theory and practice of biochemistry lab and research. Practice is done on papers selected from the literature.


Textbook and Supplementary readings1 Robyt, J.F., White, B.J. (1990) Biochemical Techniques. Waveland Press, Inc. Illinois, USA. ISBN No 0-88133-

556-82 Unpublished lecture notes. Doç Dr. A. Alev Karagözler.


1 Introduction.

2 Spectroscopic methods. UV-VIS spectrometry.

3 IR, NMR, MS.

4 Chromatographic techniques. Types of chromatography.

5 Adsorption, ion-exchange, partition, paper, thin layer chromatography.

6 Gel-permeation, Affinity, GC, HPLC.

7 Electrophoretic Techniques: Types of electrophoresis.

8 Use of radioisotopes in biochemical analysis.

9 Qualitative and quantitative methods for determining biological molecules.

10 Biological preparations.

11 Purification of proteins.

12 Enzymology.

13 Structural analysis of biological molecules.

14 Structural analysis of biological molecules.

Course assessment will be weighted 40 % for one quiz and 60 % for the final exam. Midterm is applied as the mean of the grades taken from one oral and one written presentation. Final is applied as a comprehensive written exam.

FACULTY of ARTS and SCİENCES

Course Title Natural MacromoleculesDepartment ChemistryDivision in the Dept. Biochemistry



Name of Instructors





This course presents the graduate student a systematic approach to macromolecular structure – function relationship. Tools for structure analysis of macromolecules are also discussed.


Textbook and Supplementary readings1 Protein Engineering, 1996, Jeffrey L. Cleland, Charles S. Craik, Wiley-Liss. ISBN 04711035432 Self – Organization of Complex Structures 1997, Frank Schweitzer CRC Pres. ISBN 9056990276


1 Chemical and three – dimensional structure of proteins.

2 Protein synthesis and modification.

3 Analysis of protein structure and X-ray crystallography.

4 Structure – function relationship in proteins.

5 Chemical and three – dimensional structure of nucleic acids.

6 Synthesis of nucleic acids.

7 Analysis of nucleic acid structure.

8 Structure – function relationship of nucleic acids.

9 Chemical and three – dimensional structure of polysaccharides.

10 Types of polysaccharides and structure – function relationship.

11 Structure and dynamics of natural membranes.

12 Complex macromolecules.

13 Oral presentation

14 Oral presentation



Course Title Methods in Enzymatic AnalysisDepartment ChemistryDivision in the Dept. Biochemistry



Name of Instructors

Prof. Dr. A. Alev Karagözler



Course Objective and brief Description This course is intended to serve o graduates who wish to deal with the principles and methods of

enzymatic analysis. It presents theoretical knowledge as well as principles that are necessary for practical work.


Textbook and Supplementary readings1 Principles of Enzymatic Analysis, H. U. Bergmeyer, K. Gawehn, 1978, Werlag Chemie, ISBN 3-527-25678-42 Enzim Bilgisi, 1994. Understanding Enzymes’dan çeviren S. Cengiz, M. Cengiz. Bilimsel ve Teknik Yayınları Çevri

Vakfı.


1 Terminology, importance and limits of enzymatic analysis.

2 Theoretical principles: Reaction kinetics.

3 Determination of Michaelis constant.

4 Determination of metabolites.

5 Determination of catalytic activity of enzymes.

6 NAD(P) – dependant reactions.

7 Principles of enzyme – immunoassays.

8 Reagents for enzymatic analysis.

9 Sample handling.

10 Absorption photometry.

11 Automation of analysis.

12 Enzymatic analysis with radiobiochemicals.

13 Evaluation of experimental results.

14 Discussion


FACULTY OF SCIENCE AND ARTS Course Title Heavy Metal Toxicities




Lecture Lab Credit ECTS CreditKİM 560 2 (Spring) MSc Elevative Turkish 3 0 3 7







Metabolism, toxicities and related diseases of heavy metals. Teach the separation methods of heavy metal

removal.


1 Instructor notes


1Elemental composition of the human body, biochemically important elements

and its roles in the body.

2 Effects of heavy metals

3 Alüminium: metabolism, toxicities, and related disease

4 Arsenic: metabolism, toxicities, and related disease

5 Mercury: metabolism, toxicities, and related disease

6 Lead: metabolism, toxicities, and related disease

7 Iron: metabolism, toxicities, and related disease

8 Midterm Exam

9 Cadmium: metabolism, toxicities, and related disease

10 Crom: metabolism, toxicities, and related disease

11 Antidots using metal poisoning theraphy

12 Separation methods

13 Methods and applications of heavy metal removal

14 Final Exam



Course Title Antioxidants




Lecture Lab Credit ECTS CreditKİM 562 Spring Graduate Elective Turkish 3 0 3 9


Name of Instructors Prof. Dr. A. Alev KARAGÖZLER


Adnan Menderes University, Faculty of Arts and Science, Chemistry Department, AYDIN

[email protected]


Rapid progress in the application of antioxidant substances warranted the need of knoqledge on antoxidants

and related methods. In this course, it is aimed to give a through definition of antioxidants and types of

antioxidants and their analysis methods will ve discussed.

Textbook and Supplementary readings1 Antioxidant determination methods. Prof. Dr. A. Alev KARAGÖZLER (unprinted lecture notes)2 Walton, N.J., Brown, D.E. (1999) Chemicals From Plants. Imperial College Qress, London. ISBN: 981-

02-2773-63 Cadenas, E., Packer, L. (2001) Handbook of Antioxidants. Marcel Dekker Inc. New York. ISBN: 0-8247-

0547-5


1 Antioxidants: Definition and history

2 Biochemical basis of antioxidant activity

3 Reactive oxygen species and oxidative stres

4 Chemical classification of antioxidants

5 Natural and synthetic antioxidants

6 Antioxidant determination methods and their chemical basis

7 Methods dependant on electron transfer (ET)

8 Methods dependant on hydrogen atom transfer (HAT)

9 Other related antioxidant determination methods

10 Plant antioxidant sources

11 Midterm Exam

12 Current antioxidant research

13 Current antioxidant research

14 Student presentation on antioxidant research

Final Exam



Course Title Liquid ChjromatographyDepartment ChemistryDivision in the Dept. Analytical Chemistry


Lecture Lab Credit ECTS CreditKIM 611 Fall Ph.D. Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors





The importance of modern liquid chromatography in other chromatographic methods and the place of HPLC amongst the analytical methods are introduced. The modes of liquid chromatography (adsorption, partition, ion-exchange and size exclusion) are presented in detail. Instrumentation of HPLC is introduced in real laboratory conditions. The applications of liquid chromatographic analysis in biomedical, clinical, environmental, food pharmaceutical areas are examined.


1 High Performance Liquid Chromatography. Fundamental principles and practice. Eds: W.J. Lough, I.W. Wainer. Chapman & Hall, 1996

2 Practical High Perfonce Liquid chromatography. V.R. Meyer. Wiley-VCH, 20043 Introduction to Modern Liquid Chromatography. L.R. Synder, J.J. Kirkland. John Wiley & Sons, 19794


1 HPLC versus other analytical methods2 Efficiency, retention, selectivity and resolution 3 Modes of chromatography. Partition and adsorption4 Modes of chromatography. Ion exchange and size exclusion5 Normal and reverse phase chromatography6 Support materials and solvents7 Instrumentation. Pumps, injectors and column design8 Instrumentation. Detectors9 Method development and quantitation

10 Sample preparation11 HPLC in biomedical and clinical analysis12 HPLC in environmental analysis13 HPLC in food and pharmaceutical analysis14 Student presentations



Course Title Atomic SpectrometryDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTSCreditKIM 613 Fall PhD Elective Turkish 3 - 3 9Course Prerequisites None

Name of Instructors

Professor. Dr. Mustafa DEMİR Prof. Dr. A. Ersin KARAGÖZLER




Basic concept of atomic spectrometry, atomic absorption, fluorescence, theory of plasma emission spectrometry, instrumentation and applications

Textbook and Supplementary readings1 L. Ebdon, E.H. Evans, A.S. Fisher, S.J. Hill (1998), An introduction to analytical atomic spectrometry,

John Wiley & Sons23

http://www.amazon.com/exec/obidos/search-handle-url/index=books&field-author-exact=I.W.%20Wainer&rank=-relevance%2C%2Bavailability%2C-daterank/002-4166362-7272062

http://www.amazon.com/exec/obidos/search-handle-url/index=books&field-author-exact=I.W.%20Wainer&rank=-relevance%2C%2Bavailability%2C-daterank/002-4166362-7272062

http://www.amazon.com/exec/obidos/search-handle-url/index=books&field-author-exact=W.J.%20Lough&rank=-relevance%2C%2Bavailability%2C-daterank/002-4166362-7272062

4COURSE CALENDAR / SCHEDULE

Week Lecture topics Practice/Lab/Field

1 Flame atomic absorption and emission spectrometry: theory, instrumentation and applications

2 Flame atomic absorption and emission spectrometry: theory, instrumentation and applications

3 Furnace atomic absorption spectrometry:theory, instrumentation and applications

4 Atomic fluorescence spectrometry: theory, instrumentation and applications

5 Sample atomisation process

6 Cold vapor and hydride atomisation

7 Light sources

8 Midterm Exam

9 Interferences and background correction techniques

10 Plasma emission spectroscopy

11 Inductively-coupled plasma atomic emission spectrometry (ICP-AES)

12 Arc and spark atomic emission spectrometry

13 Comparison of flame, furnace and plasma spectrometric techniques



Course Title ChemometricsDepartment ChemistryDivision in the Dept. Analytical Chemistry


Lecture Lab Credit ECTS CreditKIM 615 Fall Ph.D. Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors





After having recalled the subject of descriptive statistics and statistical tests, regression and correlation are discussed on actual analytical data. Afterward, the subject of experimental design with special emphasis on optimization is examined. The need for classification and pattern recognition of analytical data is stressed and methods of principal component, cluster and discriminant analysis are presented both in a theoretical and practical fashion.

Textbook and Supplementary readings1 Chemometrics. M. Otto. Wiley-VCH, 1999.

2 Statistics and Chemometrics for Analytical Chemistry, 4th Ed.. J.N. Miller, J.C. Miller. Pearson Education Ltd., 2000

3 Statistical Methods for Chemists. W.P. Gardiner. The Royal Society of Chemistry, 19974


1 Descriptive statistics2 Statistical tests3 Analysis of variance4 Regression and correlation5 Experimental design and optimization6 Response surface methods7 Sequential optimization8 Factorial methods. Principal component analysis9 Cluster analysis

10 Discriminant analysis11 Nonlinear regression12 Nonparametric tests13 Quality control in analytical chemistry14 Student presentations



Course Title Chemical SpeciationDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTS CreditKIM 617 Autumn PhD Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors





Importance of speciation, speciation techniques, separation and preconcentration techniques, speciation of various elements.

Textbook and Supplementary readings1 Rita Cornelis, Joe Caruso, Helen Crews, Klaus G. Heumann (2005), Handbook of Elemental Speciation, Handbook of

Elemental Speciation II: Species in the Environment, Food, Medicine and Occupational Health, Wiley2 Rita Cornelis, Joe Caruso, Helen Crews, Klaus G. Heumann (2003), Handbook of Elemental Speciation: Techniques

and Methodology, Wiley3 A.M.Ure, C.M.Davidson, (2002), Chemical Speciation in the Environment


Week Lecture topics Practice/Lab/Field1 Description of speciation, basic techniques of speciation

2 Sample preparation techniques for elemental speciation studies

3 Separation techniques : (liquid chromatography, gas chromatography and other gas based methods)

4 Capillary electrophoresis and gel electrophoresis in speciation analysis

5 Detection by atomic spectrometry for the speciation

6 Speciation analysis by electrochemical methods

7 Direct speciation of solids

8 Midterm Exam

9 Calibration in elemental speciation analysis

10 Elemental speciation - I

11 Elemental speciation - II

12 Speciation of soil, sediment and waste water

13 Speciation in biological systems



Course Title Aquatic ChemistryDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTS CreditKIM 619 Fall Ph.D Elective Turkish 3 - 3 9Course Prerequisites None

Name of Instructors

Professor. Dr. Mustafa DEMİR Prof. Dr. A.Ersin KARAGÖZLER




Composition of water and chemical equilibrium of water in natural environment, chemical equilibrium and solubility, origin of water composition and analysis of water.

Textbook and Supplementary readings1 Manahan, Stanley E. (2000), Fundamentals of aquatic chemistry, CRC Press LLC23


Week Lecture topics Practice/Lab/Field1 Water quality

2 Acid-base chemistry of aquatic systems

3 Water acidity and carbon dioxide equilibrium in water

4 Thermodynamic equilibrium in water

5 Solubility in water

6 Calcium and other metals in water

7 Phosphorus, iron and manganese

8 Midterm Exam

9 Aquatic life

10 Gases in water

11 Complexation and chelation, calculations of species concentration

12 Polyphosphates in water

13 Complexation by humic substances, complexation and redox processes



Course Title Organic Reaction Mechanisms-I




Lecture Lab Credit ECTS CreditKİM 621 1 (Fall) PhD Elective Turkish 3 0 3 9


Name of Instructors

Asist.Prof.Dr. Fatih EYDURAN




The teoric approche to the organic reactions. To prepare the student to postgraduate studies in organic

chemistry. To make the studens to have a decision about reaction conditions of organic reactions. Learning

how to organic reactions proceed, including reaction conditions. Learning how to choise of starting materiels

and methods to go to the products.

Textbook and Supplementary readings1 Carey, F.A., Sundberg, R.J., Advanced Organic Chemistry: Part A and B, Plenum Press, N.Y., 1991

2 Miller, B., Advanced Organic Chemistry: Reactions and mechanisms, Prentice Hall, N.J., 2004



1 Structure and mechanism

2 Use of kinetic data to explain organic reaction mechanism

3 Use of free energy chance principles

4 Stereochemistry

5 Properties of asid and base

6 Investigation of reaction mediate

7 Nucleophilic substitution

8 Midterm Exam

9 Electrophilic substitution

10 Elimination reactions

11 Free-radical reactions

12 Rearrangement reactions.

13 Pericyclic reactions

14 Final Exam


FACULTY of ART and SCIENCE

Course Title StereochemistryDepartment ChemistryDivision in the Dept. Organic Chemistry



CHM. 625 1 PhD Elective Turkish 3 0 3 9Course Prerequisites none

Name of Instructors

Assist.Prof.Dr. Fatih EYDURAN




organic compounds and reactions are examined in view of streochemical. Basic principle of streochemistry are learned.

Textbook and Supplementary readings1 Ernest L. Eliel, Samuel H. Wilen, Stereochemistry of Organic Compounds, John Wiley and Sons Inc.,New York, 1994

2 Ernest L. Eliel, Samuel H. Wilen, Michael P. Doyle, Basic Organic Stereochemisty, John Wiley and Sons Inc.,New

York, 2001.34



1 Symmetry in Organic compounds

2 Molecular isomers

3 Constitution isomers

4 Stereoisomers

5 Stereochemical principles

6 Conformational, steric and streo electronic effects

7 Chiral compounds

8 Midterm exam

9 Stereochemistry of radicalic, nucleophilic and elimination reactions

10Anty-Elimination in Stereospesific and stereoselective, Syn-Elimination in stereospesific and stereoselective Non-stereospesific elimination

11 Symmetric and asymmetric synthesis

12 Stereochemistry of molecular rearrengements

13 Stereochemisry of pericyclic reactions



Course Title Organoboron ChemistryDepartment ChemistryDivision in the Dept. Coorparate


Lecture Lab Credit ECTS CreditKIM 627 Fall Ph.D Elective Turkish 3 - 3 9Course Prerequisites Non

Name of Instructors





This courses encompasses organoboron compounds as well as polymers solid-state materials medicinal aspects and theoretical studies. In addition to include applications to polyolefin catalysis, medicine materials, polymers, novel optical and electronic properties.



1 An introduction to Organoboron chemistry

2 Chemistry of Mono- and Di-Boron Systems

3 Applications to Polyolefin Catalysis

4 Materials and Polymers

5 Borans

6 Heteroborans

7 Carborans

8 Midterm exam

9 Metallaboranes

10 Metallaheteroboranes

11 Medicinal Applications(BNCT)

12 Theoretical and Computational Studies

13 B11 NMR Spectroscopy



Course Title Use of Organic Dyes




Lecture Lab Credit ECTS CreditKİM 629 1 (Fall) PhD Elective Turkish 3 0 3 9


Name of Instructors





To provide a basis for understanding application and properties of dyes. To provide a background for

chemistry and applications of organic dyes.

Textbook and Supplementary readings12

Zollinger, H., Color Chemistry, Wiley-VCH, Zürich, 2003.

Zollinger, H., Color; A Multidisciplinary Approach, Wiley-VCH, Zürih, 1999.


1 Properties of dyes fastness

2 Types and structures of textile fibres

3 Principles of dyeing.


4 Application of dyes to textile fibres

5Technological applications of dyes and pigments

6 Dyes on biochemistry

7 Dyes on pharmacology

8 Midterm Exam

9 Dyes on analytical chemistry

10 Pigments of photo.- thermo,- and electrochemical reactions

11 Pigments in pictures

12 Pigments in record and data systems

13 Fadeness of dyes

14 Final Exam



Course Title Transition Metal Chemistry




Lecture Lab Credit ECTS CreditKİM 631 1 (Fall) PhD Selective Turkish 3 0 3 9


Name of Instructors






To learn systematic chemistry the elements of d-block and their compounds.


2 Instructor notes


1 Metallic properties of the transition metals

2 Occurence and isolation

3 The elements of the first and the second transition series and properties

4 Scandium and Titanium group

5 Vanadium and chromium group

6 Manganese and iron group

7 Cobalt and nickel group

8 Midterm Exam

9 Copper and zinc group

10 Compounds of transition metals with oxides, halides and sulfides

11 Metal carbonyl compounds

12 Complexes and Ligands

13 The Transition elements and their electronic structures

14 Final Exam


FACULTY OF SCIENCE AND ARTS Course Title Crystal Solids




Lecture Lab Credit ECTS CreditKİM 633 1 (Fall) Ph Optional Turkish 3 0 3 9


Name of Instructors





The aim of this course is to study the structure and properties of crystal solids formed atoms, ions and molecules that are packed in geometrical arrangement.

Textbook and Supplementary readings1 Miessler, G. L., Tarr, D. A. (Çeviri Editörleri: Karacan, N., Gürkan, P.). İnorganik Kimya. (2002). Palme Yayınları-Ankara 2 Shriver D.F., Atkins P. W., Langford C. H., (1991) Inorganic Chemistry, Oxford Chemistry,3 Cotton, F. A. and Wilkinson, G. (1980) Advanced Inorganic Chemistry, John Wiley & Sons, New York, Fourth Edition4 Huheey J.E., Keiter E.A., Keiter R.L., (1993) Inorganic Chemistry, 4th Ed., HarperCollins,


1 Crystal Geometry: Crystal Lattices

2 Crystal Structure: Classification

3 Closest Packing, Packing Of Compounds

4 Determination Of Crystal Structure: Diffraction In Crystals (X-Ray, Electron And Neutron),

5 Reuntgen Spectrometry

6 Crystal Chemistry:

7 Crystal Lattice Defects:

8 Midterm Exam

9 Structural Lattice Defects,

10 Chemical Lattice Defects

11 Electrical Lattice Defects

12 The Effect Of Lattice Defects On Diffusion

13 The Effect Of Lattice Defects On Crystal Growth



Course Title The Chemistry of the Lanthanides and the Actinides




Lecture Lab Credit ECTS CreditKİM 635 1 (Fall) PhD Selective Turkish 3 0 3 9


Name of Instructors






To learn systematic chemistry of Lanthanides and Actinides and their compounds



1 General properties of the Lanthanides

2 Occurrence and isolation

3 Oxidation states

4 Magnetic and spectral properties

5 Coordination numbers and stereochemistry

6 Complexes

7 Organometallic compounds

8 Midterm Exam

9 General properties of the Actinides

10 Occurrence and electronic structures

11 Oxidation states

12 Magnetic properties and stereochemistry

13 Complexes and organometallic chemistry

14 Final Exam



Course Title Physical Chemistry of PolymersDepartment ChemistryDivision in the Dept. Chemistry


Lecture Lab Credit ECTS CreditKIM 641 I-FALL PhD Elective Turkish 3 - 3 9Course Prerequisites




This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of polymer chemistry and some physical and chemical effects on polymers and polymerization processes.

Textbook and Supplementary readings1 Physical Chemistry of Polymers, A. Tager, MIR Publishers, Moscow, 19782


1 Chemical structure of monomers and polymers

2 Basic consepts and polymer nomenclature

3 Specific features and polymer structure

4 Chain and step polymerization

5 Degradation

6 Crosslinking reactions

7 Methods of investigation of polymer structure

8 Quiz

9 Phase transitions of polymers

10 Melting and crystallization of polymers

11 Polymer solutions.

12 Polymer mixtures

13 Glassy transition temperature, Enthalpy of mixing of polymers



Course Title Polymer CharacterizationDepartment ChemistryDivision in the Dept. Chemistry



KIM 647 I-FALL PhD Elective Turkish 3 - 3 9Course Prerequisites




This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of polymer chemistry and some techniques on polymers characterization.

Textbook and Supplementary readings1 Experimental Methods in Polymer Chemistry, Jan F. RABEK, , John Wiley Sons 1980, 2 Textbook of Polymer Science, Fred W. BILLMEYER, JR. Wiley-Interscience Publication, 19843 Hyphenated Techniques in Polymer Characterization, Thermal, Spectroscopic and Other Methods. T. Prowder,

Marek W. URBAN, Howard G. BARTH.ACS Symposium series, No: 581, American Chemical Society, Washington, DC 1994


1 Overview of the structures of polymers

2 Physical and chemical testing at polymers3 Copolymers

4 Molar mass, Colligative properties, light scattering,End group analysis, Viscosimetry, Osmometry

5 Fractination of polymers

6 Polymer solutions

7 Structural analysis techniques of polymers8 Quiz

9 Thermal analysis, Differential scanning calorimetry, Thermogravimetry

10 Tacticity of polymers

11 Main spectrophotometric techniques, UV-VIS spectroscopy, IR analysis, Polymer-solvent interactions

12 Quantitative analyis, Qualitative overwiew in polymer characterization.

13 Determination methods of Glassy transition temperature and melting temperature. Mechanical characterization



Course Title Enzyme KineticsDepartment ChemistryDivision in the Dept. Biochemistry


Lecture Lab Credit ECTS CreditKİM 651 I. Fall PhD Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors Prof. Dr. A. Alev KaragözlerInstructor Information



In this course following a brief historical review, a through discussion of enzyme kinetics is made.

Textbook and Supplementary readings1 Enzyme Kinetics, 1993. I.H. Segel , Wiley-Interscience, ISBN: 04713030972 Unpublished lecture notes of the instructor.


1 Enzymes: Historical perspective

2 Substrate specificity

3 Regulation of enzymatic activity. Allosteric enzymes.

4 Chemical kinetics.

5 Michaelis-Menten equation.

6 Analysis of kinetic data.

7 Enzyme inhibition.

8 Factors effecting enzyme activity.


9 Bisubstrate enzymatic reactions.

10 Cofactors and coenzymes.

11 Active site – catalytic site.

12 Determination and meaning of Km, Vmax and kcat.

13 Applications of enzyme kinetics.

14 Applications of enzyme kinetics.


FACULTY OF SCIENCE AND ARTSCourse Title Biochemistry of Nucleic Acids

Department ChemistryDivision in the Dept. Biochemistry



KİM 653 1 (Fall) PhD Elevative Turkish 3 0 3 9Course Prerequisites None






This course is to acquaint chemistry and the other department students with fundamental concepts of

biochemistry of nucleic acid.



1 Biological functions of nucleic acids

2 Exist of nucleic acids

3 Chemical structure of nucleic acids

4 Isolation and characterization of nucleic acids

5 Structure of RNA

6 Nucleic acids of virus

7 Nucleases and its relation with enzymes

8 Midterm

9 Biosynthesis of Mononucleotids

10 Biosynthesis and replication of DNA

11 Biosynthesis and transcription of RNA

12 Biological functions of RNA-Protein synthesis

13 Catabolism of nucleic acids

14 Final Exam


FACULTY OF SCIENCE AND ARTSCourse Title Bioistatistic




KİM 655 1 (Fall) PhD Elevative Turkish 3 0 3 9Course Prerequisites None






This course is to acquaint biostatistics students with fundamental concept of biostatistics, and to introduce

importance of biostatistics in their daily and orcupation lives.

Textbook and Supplementary readings1 Sümbüloğlu K. ve V, Biyoistatistik, 6 bs. Özdemir Yayıncılık, Ankara, 1995

2 Şenocak M, Biyoistatistik,2 bs., Cerrahpaşa Tıp Fakültesi Yayını, No:214, İstanbul, 1998.


1 Introduction

2 Basic bioistatistic definitions

3 Collecting knowledge

4 Classification of data

5 Critarions of distribution

6 Critarions of distribution

7 Diagrams

8 Midterm

9 Hypothesis test

10 Methods of parametric

11 Regrassions and Corelations

12 Regrassions and Corelations

13 General practice

14 Final Exam



Course Title Biopolymers and Biomaterial




KİM 657 1 (Fall) PhD Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors Asst. Prof. Dr. Sinan AKGÖLInstructor Information



What are the biomaterials? Basic definitions, metallic biomaterials, ceramic biomaterials, polymerization and basic structure, polymers used as biomaterials, surface modifications for biocompatibility, composite biomaterials, biodegradable polymeric biomaterials, biologic biomaterials: tissue-derived biomaterials, soft tissue replacements, preservation techniques for biomaterials


2 Biomaterials: Principles and Applications, CRC Press, 2002.


1 What are the Biomaterials? Basic definitions

2 Metallic biomaterials

3 Ceramic biomaterials

4 Polymerization and basic structure

5 Polymers used as Biomaterials

6 Sterilization

7 Surface modifications for biocompatibility

8 Midterm

9 Composite biomaterials

10 Biodegradable polymeric biomaterials

11 Biologic biomaterials: Tissue-derived biomaterials

12 Soft tissue replacements

13 Preservation techniques for biomaterials

14 Final Exam



Course Title Advanced Biochemical AnalysisDepartment ChemistryDivision in the Dept. Biochemistry


Lecture Lab Credit ECTS CreditKİM 659 I. Fall PhD Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors





This course discusses the basic analytical principles, analytical methods and use of analytical methods in biochemical research.

Textbook and Supplementary readings1 Principles of Instrumental Analysis. Skoog D. A., Holler F. J., Nieman T. A., 1998, ed. Kılıç E., Köseoğlu F.,

Yılmaz H. Bilim Yayıncılık, Ankara. ISBN 975-556-041-62 Bioanalytical Chemistry. Suzan R. Mikkelsen, Edward Corton, 2004, Wiley – Interscience, ISBN-0- 471-54447-7


1 Introduction: Role of analytical chemistry in biochemical research.

2 Basic analytical principles.

3 Classification of quantitative analytical methods.

4 Error analysis.

5 Separation and extraction methods.

6 Chromatographic techniques.

7 Electrophoretic techniques.

8 Theory of spectroscopic methods.

9 UV-VIS spectrophotometry.


10 NMR, IR and their use in biochemical research.

11 Immunochemical techniques.

12 Mass spectroscopy and MALDI-MS

13 Examples to applications.

14 Examples to applications.



Course Title Radiation ChemistryDepartment ChemistryDivision in the Dept. Chemistry


Lecture Lab Credit ECTSCreditKIM 661 I-FALL PhD Elective Turkish 3 - 3 9Course Prerequisites




This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of radiation chemistry and some techniques on radiation chemistry.

Textbook and Supplementary readings1 Physical Chemistry, Gilbert W. Castellan, , Addison-Wesley Publishing Company, Reading, Massachusetts, 1971 2 The Radiation Chemistry of Macromolecules, Malcolm Dole (editor), Academic press, New York, 19723


1 The reaction of intermediates

2 Fundemental processes and the theory3 Free radical theory4 Nuclear fission (decomposition of nuclei)

5 Nuclear fusion (cooperation of nuclei)

6 The rate of nuclei reaction

7 The analysis of neutron activation8 Quiz9 Energy transfer

10 Thermoluminescence

11 Labeling by radioisotopes

12 Separation of radioisotopes

13 Applications in radiation chemistry


FACULTY OF SCIENCE AND ARTS Course Title Therapeutically Selective Polymers





KİM 663 1 (Fall) PhD Elective Turkish 3 0 3 9






Natural and synthetic polymers with use of polymer in the health industry. Teach the application and research area of therapeutically use of specific sorbents.



1 Natural and synthetic polymers

2 Use of polymers in the health industry

3 Use of polymers in the health industry: Application and research area

4 Polymeric biomaterials

5 Polymeric biomaterials

6 Use of polymers in bioseparation processess

7 Blood fractionation

8 Midterm Exam

9 Hemoperfusion ve extracorporal theraphy

10 Body fluids and biomaterials interaction

11 Therapeutically use of specific sorbents

12 Therapeutically use of specific sorbents: Application and research area

13 What might be in the future?

14 Final Exam



Course Title Environmental Analytical ChemistryDepartment ChemistryDivision in the Dept. Corporate


Lecture Lab Credit ECTS CreditKIM 602 Spring PhD Elective Turkish 3 - 3 9Course Prerequisites None

Name of Instructors





Basic analysis techniques of air, water, soil and food by environmental aspect, sample preparation and preconcentration techniques

Textbook and Supplementary readings1 Somenath Mitra (2003), Sample Preparation Techniques in Analytical Chemistry, Wiley & Sons Publication2 Roger Reeve,( 2002), Introduction to Environmental Analysis, John Wiley & Sons Ltd34


1 Description of environment and pollution, the necessity of chemical analysis

2 Sampling and sample species

3 Extraction in sample preparation

4 Enrichment in sample preparation

5Water analysis – major constituents (suspended materials, dissolved oxygen and oxygen demand, total organic carbon, pH, acidity and alkalinity, hardness of water, electrical conductivity)

6 Water analysis – trace pollutants (organic trace pollutants, metal ions)

7 Analysis of solid and waste

8 Midterm Exam

9 Atmospheric analysis

10 Ultra-trace analysis

11 Food analysis

12 Confidence of analysis - statistics

13 Quality control analysis



Course Title Bioanalytical ChemistryDepartment Chemistry Division in the Dept. Biochemistry


Lecture Lab Credit ECTS CreditKİM 612 II.Spring PhD Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors





The aim of this course is to evaluate and discuss the use of basic analytical methods in biochemical research.

Textbook and Supplementary readings1 Bioanalytical Chemistry. Suzan R. Mikkelsen, Edward Corton, 2004, Wiley – Interscience, ISBN-0- 471-54447-72 Bioanalytical Chemistry unpublished Lecture notes. Assoc. Prof. Dr. A. Alev Karagözler.


1 Spectroscopic Methods for Matrix Characterization.

2 Enzymes. Quantitation of Enzymes and Their Substrates.

3 Immobilized Enzymes.

4 Antibodies. Quantitative Immunoassay with Labels.

5 Biosensors.

6 Design of Macromolecular Bioassay Reagents.

7 Principles of Electrophoresis. Zone Electrophoresis.

8 Isoelectric Focusing. Capillary Electrophoresis

9 Centrifugation Methods.

10 Chromatography of Biomolecules.

11 Chromatography of Biomolecules.


12 Mass Spectrometry of Biomolecules.

13 Validation of New Bioanalytical Methods.

14 Validation of New Bioanalytical Methods.

Course assessment will be weighted 40 % for one midterm exam and 60 % for the final exam. Midterm is applied as the mean of the grades taken from one oral and one written presentation. Final is applied as a comprehensive written exam


Course Title Molecular SpectrometryDepartment ChemistryDivision in the Dept. Analytical Chemistry


Lecture Lab Credit ECTS CreditKIM 614 Spring Ph.D. Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors





Before teaching the principles and instrumentation of individual methods, common principles of optical spectrochemical methods are discussed in detail. The subjects of the concept of spectrochemical information, spectrochemical methodology and optical components of spectrometers are examined in detail.

Textbook and Supplementary readings1 Spectrochemical Analysis. J.D. Ingle, Jr., S.R. Crouch. Prentice Hall, 19882 Contemporary Instrumental Analysis. K. A. Rubinson, J.F. Rubinson. Prentice Hall, 20003 Analytical Instrumentation. G. Currel. John Wiley & Sons, 20004


1 Spectrochemical measurements2 Optical components of spectrometers3 Sources, transducers and measurement systems

4 Wavelength dispersion5 Dispersive and nondispersive systems6 Signal-to-noise ratio and its enhancement7 Methodology in spectrochemical analysis8 Introduction to molecular spectrometry9 UV and visible absorption spectrophotometry

10 Infrared spectrometry11 Molecular luminescence spectrometry12 Molecular scattering methods13 Surface analysis by spectroscopy and microscopy14 Student presentations



Course Title Avanced Voltammetric TechniquesDepartment ChemistryDivision in the Dept. Analytical Chemistry



Name of Instructors





The thermodynamics and kinetics of electrochemical reaction are examined in detail and the resulting concepts and equations are related to individual techniques. Various voltammetric techniques is investigated especially in relation to chemical analysis. Electrodes used in voltammetry and modified electrodes are introduced and also setup of voltammetric experiments are demonstrated.

Textbook and Supplementary readings1 Analytical Electrochemistry.Second Ed. J. Wang. Wiley-VCH, 20002 Laboratory tTechniques in Electroanalytical chemistry. 2nd edition. Eds: P. Kissinger and W. Heineman,

Marcel-Dekker, 19963 Electroanalytical Methods. Ed: F. Scholz. Springer, 20024 Fundementals of Electroanalytical Chemistry. P. Monk. John Wiley& Sons, 2002


1 Electrical double layer2 Thermodynamics of electrochemical reactions3 Kinetics of electrochemical reactions4 Cyclic voltammetry5 Pulse voltammetry6 Square-wave voltammetry7 Chronocoulometry8 Electrochemical impedance spectroscopy9 Stripping voltammetry

10 UV/Vis/NIR spectroelectrochemistry11 Electrodes: Working and reference12 Chemically modified electrodes

13 Electrolytes and experimental setup14 Student presentations



Course Title Chemical SensorsDepartment ChemistryDivision in the Dept. Analytical Chemistry



Name of Instructors





The subject of recognition of ionic and neutral molecular species by agents in membrane matrices is introduced and the principles of thermodynamics and nonthermodynamic assumptions of processes are thought. Types of membranes and membrane models are presented. Some examples of amperometric and optical sensors are reviewed. Additionally, the concepts of sensitivity, selectivity and detection limit in relation to sensors are checked. The problems of sensor miniaturization are discussed.

Textbook and Supplementary readings1 Principles of Chemical and Biological Sensors. D. Diomond. John Wiley&Sons, 19982 Chemical Sensors and Biosensors for Medical and Biological Applicatios. U.E. Spichiger-Keller. Wiley-

VCH, 19983 Introduction to Bioanalytical Sensors. A.J. Cunningham. John Wiley&Sons. 19984


1 The concepts of chemical and biochemical sensors2 Molecular recognition of ions and neutral species3 Reversibility and Thermodynamic equilibrium4 Nonthermodynamic assumtions5 Types of membranes and membrane models6 The membrane composition and membrane medium7 Response behavior, sensitivity, selectivity and detection limit8 Types of ion selective electrodes9 Ion selective optodes

10 Amperometric biosensors 11 Principles of fiber optic chemical sensors12 Glass electrode for pH and amperometric glucose electrode

13 Sensor miniaturization14 Student presentations



Course Title Organic Reaction Mechanisms-II




Lecture Lab Credit ECTS CreditKİM 622 2 (Spring) PhD Elective Turkish 3 0 3 9


Name of Instructors





The teoric approche to the organic reactions. To prepare the student to postgraduate studies in organic chemistry. To make the studens to have a decision about reaction conditions of organic reactions. Learning how to organic reactions proceed, including reaction conditions. Learning how to choise of starting materiels and methods to go to the products.

Textbook and Supplementary readings1 Carey, F.A., Sundberg, R.J., Advanced Organic Chemistry: Part A and B, Plenum Press, N.Y., 19912 Miller,B., Advanced Organic Chemistry: Reactions and mechanisms, Prentice Hall, N.J., 2004


1 Use of disconnection approach

2 Principles of synthesis of aromatic compounds

3 Disconnection of a group of C-X

4 Disconnection of two groups C-X

5 C-C Disconnection of alcohol

6 Elimination of groups of C-C in carbonyl groups

7 Disconnection of two groups C-C in reaction of Diels-Alders

8 Midterm Exam

9 Disconnection of cyclic compounds

10 Intramolecular reactions


11 Photochemical reactions

12 Oxidation and reduction reactions

13 Multistep reactions

14 Final Exam



Course Title Heterocyclic Compounds




Lecture Lab Credit ECTS CreditKİM 626 2 (Spring) PhD Selective Turkish 3 0 3 9


Name of Instructors






To learn the chemical structures, reactivity and synthesis of heterocyclic compounds.

Textbook and Supplementary readings1 J. A. Joule and K. Mills, Heterocyclic Chemistry, 2000, Chapman and Hall, Cambridge


1 Classification and nomenclature of aromatic heterocyclic compounds

2 Synthesis and reactivity of aromatic heterocyclic compounds

3 Pyrdines

4 Ouinolines and isoquinolines

5 Pyrylium and benzopyrylium ions, pyrone and benzopyrones

6 Reactivity and reactions of heterocyclic compounds containing two nitrogen atom

7 Reactivity and synthesis of pyrroles, thiophenes and furans

8 Midterm Exam

9 1,3 and 1,2 azoles and their reactivity

10 Aliphatic heterocyclic compounds

11 Aliphatic heterocyclic compounds containing more than hetero atoms

12 Saturated and partially unsaturated heterocyclic compounds

13 Reactivity and synthesis of saturated and partially unsaturated heterocyclic compounds

14 Final Exam


FACULTY of SCIENCE and ARTS

Course Title Advanced Organometallics ChemistryDepartment ChemistryDivision in the Dept. Corparate


Lecture Lab Credit ECTS CreditKIM 628 Spring Ph.D Elective Turkish 3 - 3 9Course Prerequisites None

Name of Instructors





Structure, bonding, and reactions of compounds containing metal-carbon bonds. Special topics include applications of organometallic chemistry to the synthesis of organic compounds. Examples illustrate organometallic chemistry as a bridge between organic and inorganic chemistry.

Textbook and Supplementary readings1 C. Elschenbroich, A.Salzer (1992), Organometallics, VCH .2 E. Riedel (2004) Anorganische Chemie, Walter de Gruyter Berlin-New York.3 Chemistry of the Elements, N.N. Greenwood,19974 G.L. Miessler, D. A. Tarr (1999), Prentice-Hall.


1 Historical Development and Current Trends in Organometallics Chemistry

2 Alkali organometallics

3 Organometallics of Groups 2 and 12

4 Organoelement Compounds of the Boron Group

5 Organoelement Compounds of the Carbon Group

6 Organoelement Compounds of the Nitrogen Group

7 Midterm Exam

8 Organoelement Compounds of Selenium and Tellurium

9 Organometallics of Copper, Silver and Gold

10 -Donor Ligands

11 -Donor / -Acceptor Ligands

12 , -Donor / -Acceptor Ligands

13 Metal-Metal Bonds and Transition Metal Atom Clusters



Course Title Inorganic Reactions and Mechanisms




Lecture Lab Credit ECTS CreditKİM 632 II (Spring) PhD Optional Turkish 3 0 3 9


Name of Instructors





It will be provide a sound understanding of all the individual elementary processes involving molecules that take place in producing the overall reaction in this class of compounds.

Textbook and Supplementary readings1 Tunalı, N. K. ve Özkar, S., (1999)Anorganik kimya, Gazi Kitabevi, Ankara 2 Miessler, G. L., Tarr, D. A. (Çeviri Editörleri: Karacan, N., Gürkan, P.) (2002) İnorganik Kimya. Palme Yayınları-Ankara3 Cotton, F. A. and Wilkinson, G. (1980) Advanced Inorganic Chemistry, John Wiley & Sons, New York, Fourth Edition4 Douglas, B., McDaniel, D., Alexander, Concepts, J. (1982) Models of Inorganic Chemistry, 3rd ed.; Wiley & Sons, New York,

Chapter IX


1 Inert and labil compounds

2 Mechanisms of substitution

3 Dissociation, Interchange

4 Association, Linear free energy relationships

5 Associative mechanism

6 The conjugate base mechanism

7 The Kinetic chelate effect

8 Midterm Exam

9 Substitution in trans complexes

10 Substitution in cis complexes

11 Isomerisation of chelate rings

12 Reactions of square-planar complexes

13 The trans effect

14 Reactions of coordinated ligands

Final ExamCourse assessment will be weighted 40 % for one quiz and 60 % for the final exam. Depending on instructor’s preference, assessment may be by written or/and oral examination, homework, lab assay, projects, group presentation, or a combination of these.


Course Title Chemistry of nonmetals and semimetalsDepartment ChemistryDivision in the Dept. Coorparate


Lecture Lab Credit ECTS CreditKIM634 Spring Ph.D Elective Turkish 3 - 3 9Course Prerequisites Non

Name of Instructors





This course encompasses a comprehensive survey of the chemistry and properties of the Chemistry of nonmetals and semimetals. Topics include syntheses, structures and reactivities of important compounds. In addition, alternative bonding theories which have been used to explain the unique properties of these compounds are critically examined



1 Introduction of Chemistry of nonmetals and semimetals

2 The Chemistry of Hydrogen and Hydrides

3 The Chemistry of Boron group

4 The Chemistry of Carbon group

5 The Chemistry of Nitrogen group

6 The Chemistry of Halogens and Halides

7 Interhalogen compounds– their preparation, structures and stabilities

8 Midterm exam

9 The Chemistry of noble gases

10 Reaktive intermediates

11 Rings and Chains compounds

12 Cages and clusters compounds

13 Cages and clusters compounds



Course Title HydrogelsDepartment ChemistryDivision in the Dept. Chemistry


Lecture Lab Credit ECTS CreditKIM 640 II-Spring PhD Elective Turkish 3 - 3 9Course Prerequisites




This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of hydrogels polymer chemistry and hydrogel characterization.

Textbook and Supplementary readings1 Polymer Gels and Networks, Yoshihito OSADA, Alexei R. KHOKHLOV, Marcel Dekker, Inc., New York, 2002.2


1 Definition of xerogel and hydrogel, Crosslinking

2 Multifunctional crosslinkers

3 Copolymers

4 Homopolymeric and copolymeric hydrogel synthesis

5 Hydrogel synthesis and preparation by high energy-ionization radiation and gamma rays

6 Chemically hydrogel synthesis by using some crosslinkers in solutions

7 Using of synthetic hydrogels in biomedicine, pharmaceutically applications, veterinary and other fields

8 Quiz

9 Controlled release systems, Drug carrier systems

10 Hydrogels as biomaterial, Hydrogels and adsorption

11Water treatment and purification, Removal of heavy metals and dyes by hydrogels, controlled release of fertilizers and agricultural drugs by hydrogels

12 Ion exchanging applications

13 Chromatographic applications, Solvent extraction process.



Course Title Adsorption in PolymersDepartment ChemistryDivision in the Dept. Chemistry






This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of polymer adsorption properties and some application such as environmental water treatment and water purification by polymers.

Textbook and Supplementary readings1 Physical Chemistry of Polymers, A. Tager, MIR Publishers, Moscow, 19782


1 Sorption and Adsorption in polymers

2 Porosity and methods of its estimation

3 Calculation of specific surface area of sorbent

4 Calculation of total pore volume of sorbent

5 Methods of forming porous structure of polymers

6 Classification of polymer sorbents

7 Mechanism of sorption of low-molecular substances by polymers

8 Quiz

9 Ion-exchange resins

10 Gel ion-exchange resins

11 Standard ion-exchange resins

12 Application of standard ion-exchange resins

13 Macroporous ion-exchange resins

14 Final Exam



Course Title Mechanisms of Enzymatic Catalysis Department ChemistryDivision in the Dept. Biochemistry


Lecture Lab Credit ECTS CreditKİM 650 II. Spring PhD Elective Turkish 3 0 3 9Course Prerequisites None

Name of Instructors





Enzyme research is involved both with kinetics and the type of chemical reaction. Therefore, this course aims to understand, explain and investigate the mechanisms of enzymatic reactions that take place in metabolism.

Textbook and Supplementary readings1 Enzymatic Reaction Mechanisms, C. Walsh 1979, W. H. Freeman and Company, ISBN 0-7167-0070-02 Unpublished lecture notes of the instructor.


1 Introduction: Enzymes and catalysis. Types of enzymatic catalysis.

2 Enzyme – catalysed group transfer reactions.

3 Endo- and ekzo – peptidases.

4 Phosphoryl transfer: Kinases

5 Phosphoryl transfer: Phosphatases.

6 Other group transfer reactions.

7 Enzymatic oxidation – reduction reactions.

8 Nicotinamide coenzymes. Flavine – dependent reactions.

9 Enzyme catalysed elimination, izomerization and rearrangement reactions.

10 Enzymatic reactions that make and break C-C bonds.

11 Decarboxylation – carboxylation reactions.

12 The chemical logic of metabolic pathways.

13 Examples to the enzymatic reactions.

14 Examples to the enzymatic reactions.



FACULTY OF SCIENCE AND ARTSCourse Title Lipid and Membrane Biochemistry




KİM 652 2 (Spring) PhD Elevative Turkish 3 0 3 9Course Prerequisites None

Name of Instructors Assoc.. Prof. Dr. Sinan AKGÖL





This course aims teach the lipids, oil acids, triacylgliserols, phosphoacylgliserols, waxes, sphingolipids,

glycolipids, steroids, cholesterol, biologic membranes and membrane receptors, fluid mozaic model and

transport.



1 Lipids

2 Lipids

3 Oil acids

4 Oil acids

5 Triacylgliserols

6 Triacylgliserols

7 Phosphoacylgliserols

8 Midterm

9 Waxes, Sphingolipids

10 Glycolipids, Steroids

11 Steroids, cholesterol

12 Biologic membranes and membrane receptors

13 Fluid mozaic model and transport

14 Final Exam


FACULTY OF SCIENCE AND ARTSCourse Title Carbohydrate Biochemistry




KİM 654 2 (Spring) PhD Elective Turkish 3 0 3 9Course Prerequisites None






This course aims teach the structure of the carbohydrates, classification, and chemical reactions of carbohydrates, glycolitic pathway, glycogen, and ATP production, biosynthesis of carbohydrates, glyconeogenesis, photosynthesis and photorespiration, regulation of carbohydrate metabolic pathway, hormonal and enzymatic regulation of metabolic pathways, integration of carbohydrate and lipid metabolisms, inter-organ relationship in mammalian metabolism, carbohydrate metabolism in different physiological and pathological conditions.



1 Structure of the carbohydrates

2 Classification, and chemical reactions of carbohydrates

3 Catabolism, digestion and adsorption of the carbohydrates

4 Glycolitic pathway, glycogen, and ATP production

5 Glycolitic pathway, glycogen, and ATP production

6 Biosynthesis of carbohydrates, glyconeogenesis

7 Photosynthesis and photorespiration

8 Midterm

9 Regulation of carbohydrate metabolic pathway

10 Hormonal and enzymatic regulation of metabolic pathways

11 Integration of carbohydrate and lipid metabolisms

12 Inter-organ relationship in mammalian metabolism

13Carbohydrate metabolism in different physiological and pathological

conditions


FACULTY OF SCIENCE AND ARTS Course Title Protein Biochemistry


Division in the Dept.

Biochemistry



KİM 656 2 (Spring) PhD Elective Turkish 3 0 3 9






This course aims teach the definition and classification of proteins, classification of aminoacids, ccid-base behaviour of amino acids, primer, seconder, tertiary and quaterner structures of proteins, stereochemistry of proteins and its absorption spectrums, molecular organizations of proteins and protein denaturation, amino (-NH2) ve carboxy (-COOH) group reactions of proteins, R group reactions of amino acids, protein synthesis mechanism in the cell, enzymes, protein purification.

Textbook and Supplementary readings1 Lecture notes


1 Definition and classification of proteins

2 Classification of aminoacids

3 Acid-base behaviour of amino acids

4 Primer, seconder, tertiary and quaterner structures of proteins

5 Stereochemistry of proteins and its absorption spectrums

6 Molecular organizations of proteins and protein denaturation

7 Protein solubility

8 Midterm

9 Amino (-NH2) ve carboxy (-COOH) group reactions of proteins

10 R group reactions of amino acids

11 Protein synthesis mechanism in the cell

12 Enzymes

13 Protein purification


FACULTY OF SCIENCE AND ARTS Course Title Biosensors












What is the biosensors? Types of biosensors, Calorimetric biosensors, Potentiometric and amperometric

biosensors, Optical biosensors, Piezo-electric biosensors, Immunosensors.


2 Instructor notes


1 What is the biosensors?

2 Types of Biosensors

3 Calorimetric biosensors

4 Application of Calorimetric biosensors

5 Potentiometric and amperometric biosensors

6 Application of Potentiometric and amperometric biosensors

7 Optical biosensors

8 Midterm Exam

9 Application of Optic Biosensors

10 Piezo-electric biosensors

11 Application of Piezo-electric biosensors

12 Immunosensors

13 Application of immunosensors

14 Final Exam



Course Title Adsorption Mechanisms in SolidsDepartment ChemistryDivision in the Dept. Chemistry






This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in the fundamentals of adsorption and some adsorption techniques onto solids.

Textbook and Supplementary readings1 Principles of Colloid and Surface Chemistry, Paul C. Heimenz, Marcel Dekker, Inc. 1977, New York, USA. 23


1 Adsorption and Adsorption types

2 The functionality of catalysts3 Adsorption forces and energy4 Adsorption of gaseous by solids

5 Adsorption of solutes by solids

6 Adsorption isotherms

7 Freundlich, Langmuir, BET isotherms8 Quiz

9 Giles adsorpsiyon ilkeleri ile adsorpsiyon mekanizmalarının aydınlatılması

10 Desorption

11 Adsorption thermodynamics

12 The special applications of adsorption

13 The special industrial application of adsorption



Course Title Statistical ThermodynamicsDepartment ChemistryDivision in the Dept. Chemistry






This lecture is designed to provide a solid background for students who intend to go on to the graduate study and a thorough background in statistical thermodynamics.

Textbook and Supplementary readings1 Physical Chemistry, . W. Atkins, Oxford University Press. 1982, London, UK. 23


1 Statistical thermodynamics: the concepts

2 Fundamental statistical definitions3 The partition of relative particles to energy levels4 The partition laws

5 Thermodynamic calculations

6 Entropy and irregularity

7 Statistical entropy8 Quiz9 The partition functions

10 The relativity of thermodynamic quantities with partition functionality

11 The calculation of rate constants by partition functionality

12 Using of statistical thermodynamics

13 Statistical chemical potential


FACULTY OF SCIENCE AND ARTS Course Title Artifical Organs












Artificial organ technology. Teach the different artifical organs and application of synthetic biomaterial

using in the artifical organ modelling



1 History of the artifical organs

2 Application of synthetic biomaterial using in the artifical organ construction

3 Artifical liver

4 Artifical heart

5 Artifical kidney

6 Artifical lungs

7 Artifical pancreas

8 Midterm Exam

9 Cadmium: metabolism, toxicities, and related disease

10 Cromium: metabolism, toxicities, and related disease

11 Antidots using metal poisoning theraphy

12 Separation methods

13 Methods and applications of heavy metal removal

14 Final Exam


akademik.adu.edu.tr · Web viewInstructor Information Adnan menderes Üniversitesi, Fen-Edebiyat...

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Transcript of akademik.adu.edu.tr · Web viewInstructor Information Adnan menderes Üniversitesi, Fen-Edebiyat...