Kamis, 17 Juli 2014


Title
Diploma Work
Code
ÚCHV/DPCO1b/00
Teacher

ECTS credits
6
Hrs/week
-/-
Assessment
Recognition
Semester
2
Objective
To have students perform the experiments for experimental part of diploma work.
Content
Individual experimental work of student and study of required literature.
Prerequisite courses
ÚCHV/DPCO1a/00
Automatic rerequisite courses
ÚCHV/DPCO1a/00
Recommended reading 
According to the approved setting of diploma work and literature search.



Title
Diploma Work
Code
ÚCHV/DPCO1c/03
Teacher

ECTS credits
8
Hrs/week
-/-
Assessment
Recognition
Semester
3
Objective
To have students perform the experiments required for diploma work and to process their results.
Content
Individual experimental work of student and continuous processing of the obtained results.
Prerequisite courses
ÚCHV/DPCO1b/00
Recommended reading 
According to the approved setting of diploma work and student’s own literature search.


Title
Diploma Work
Code
ÚCHV/DPCO1d/03
Teacher

ECTS credits
30
Hrs/week
-/-
Assessment
Recognition
Semester
4
Objective
To have students finish their experiments, process their results, and learn how to write a thesis.
Content
Finishing the student’s experimental work, processing of the obtained results and writing the diploma work.
Prerequisite courses
ÚCHV/DPCO1c/03
Recommended reading 
According to the approved setting of diploma work and student’s own literature search.


Title
Biophysical Chemistry II
Code
ÚCHV/BFC1b/03
Teacher
Sedlák Erik, Podhradský Dušan, Antalík Marián
ECTS credits
8
Hrs/week
2/4
Assessment
Examination
Semester
3
T/L method
Lecture, Practical
Content
General laboratory work on problems with biological systems: Properties of materials and fields; cryoscopy, pressure, density, surface tension, osmometry; callorimetry, microgravimetry; transport and hydrodynamic analysis; conductivity, ion selective and enzyme electrodes, dielectric spectroscopy; absorption spectroscopy, circular dichroism; Raman and infrared spectroscopy,; spectrofluorescence, chemiluminescence, rapid kinetic techniques; Mossebauer spectroscopy;
NMR, EPR spectroscopy; light, x-ray scattering; atomic field force measurements, tunneling spectroscopy; microscopy (electron, light, ultrasound).
Prerequisite courses
ÚCHV/BFC1a/01
Recommended reading 
Cantor,C.R.,Schimmel,P.R Biophysical Chemistry, W.H. Freeman and Co., S. Francisco,1980
Kersal E. van Holde, W. Curtis Johnson, P. Shing Ho: Principles of Physical Biochemistry, Prentise Hall, 1998
Atkins PW. Physical Chemistry, Oxford Univ. Press, Oxford, 1998
Hoppe W, Lohmann W, Markl H, Ziegler H (ed.) Biophysics, Springer- Verlag, Berlin, 1983
Articles from Journals


Title
Seminar on Diploma Work
Code
ÚCHV/SDP/03
Teacher

ECTS credits
2
Hrs/week
-/2
Assessment
Assessment
Semester

T/L method
Practical
Objective
To teach the student to prepare a presentation of his/her own results, to respond to criticism, to participate in scientific discussion, and to fulfil formal requirements of written diploma work.
Content
Presentation of researched information and own experimental results; scientific discussions and writing of scientific text.

Recommended reading 
According to field of diploma work.

Compulsory elective courses

Title
Bioenergetics and Bioelectronics
Code
ÚCHV/BBA1/03
Teacher
Podhradský Dušan, Antalík Marián
ECTS credits
5
Hrs/week
3/-
Assessment
Examination
Semester

T/L method
Lecture
Content
Cell metabolism, ATP, polyphosphates. Electron transport chain, mitochondria, chloroplast, chemoautotrops
Photosynthesis, bacteriorodopsin. Oxidative phosphorylation, chemical gradient. ATPases
Membrane transport. ATP metabolism. Electron transport in biomacromolecules. Electric sources, battery. Organic electric materials. Photolysis of water. Organic a biological memories
Molecular films, nanotechnology, Integrated system between neurons and electronics.

Recommended reading 
Voet,D. Voet,J.G. Biochemistry,
Articles from Journals


Title
Biochemistry of Micro-organisms
Code
ÚCHV/BCM/04
Teacher
Podhradský Dušan, Kožurková Mária
ECTS credits
6
Hrs/week
2/2
Assessment
Examination
Semester

T/L method
Lecture, Practical
Content
Structure, physiology and control of micro-organisms; extremophiles; nitrogen-fixing bacteria, nitrogen cycle, nitrification; microbial genetics; medical microbiology; immunology and applied microbiology; biofilms.
Recommended reading 
McCall D., Stock D., Achrey P., Introduction to Microbiology, Blackwell Science, USA, 2001


Title
Biochemistry of Physiological Processes
Code
ÚCHV/BFP/04
Teacher
Podhradský Dušan, Antalík Marián, Tomášková Nataša
ECTS credits
8
Hrs/week
3/3
Assessment
Examination
Semester

T/L method
Lecture, Practical
Content
Cell cycle; regulation mechanism of embryogenesis; apoptosis and degradation of biomacromolecules; regeneration processes; biochemical specialisation of inner cell particles; specialisation of body organs; metabolic functions of the liver and the kidney; the endocrine system, hormones; second messengers; generation and conduction of action potentials; synaptic transmission; immune system; blood sedimentation rate; communication between organisms; symbiosis; ecology.
Recommended reading 
D.Voet, J.G. Voetová, Biochemie, Viktoria Publishing, Praha, 1994
Alberts at al.., Molecular Biology of The Cell, 3rd edition, Garland Publishing, NY.1994H. Tedeshi, Cell Physiology, www.cellphysiology.com; article in science journals.


Title
Enzymology
Code
ÚCHV/ENZ/04
Teacher
Sedlák Erik, Podhradský Dušan, Györyová Katarína
ECTS credits
5
Hrs/week
3/-
Assessment
Examination
Semester

T/L method
Lecture
Objective
To teach students to use the basic equations of enzyme kinetics. To have students develop the ability to determine basic kinetic and thermo-dynamic parameters of enzyme catalyzed reaction.
Content
Introduction. Chemical catalysis: theory of transition state. Enzyme catalysis: types and examples. Cofactors. Active site: lock and key; induced fit. Enzymes: classification. 3D structure of proteins.  Noncovalent interactions. Secondary, tertiary and quaternary structures. Convergent and divergent evolution. Multienzyme complexes. Dynamics of proteins. Ligand binding. Thermodynamics and kinetics. Techniques. Chemical kinetics. Basic equations of enzyme kinetics.
Regulations of enzyme activity: examples. Conformational change; allosteric regulation. Regulation of metabolic pathways. Experimental determination of enzyme activity. pH and temperature dependence of enzyme catalysis. Determination of individual rate constants. Stop flow. Enzyme-substrate complementarities and the use of binding energy in enzyme catalysis. Reversible inhibition. Irreversible inhibition. Specificity and control mechanisms. „Moonlighting“ enzymes. Applic-ations of enzymes (organic solvents). Catalytic antibodies. Extremo-philes. Directed selection of enzymes. Enzymatic reactions with multiple substrates.
Recommended reading 
Alan Fersht “Structure and Mechanism in Protein Science: A Guide to Enzyme Catalysis and Protein Folding. “ (3rd Ed. W. H. Freeman and Company, 1999)
Robert A. Copeland: Enzymes (2nd edition), Wiley-VCH, 2000.


Title
Biotechnology Practical
Code
ÚCHV/PBT1/03
Teacher

ECTS credits
6
Hrs/week
-/5
Assessment
Assessment
Semester

T/L method
Practical
Content
Alcoholic fermentation. Milk fermentation. Pectin as a gellic agent: its alcalimetric determination. Preservative food additives. Paper chromato-graphy of aminoacids. Antibiotics: bacteriocines. Antioxidation effect of vitamin C. Preparation of drugstore.
Recommended reading 
M.Ferenčík, B. Škárka, Biochemical laboratory methods, ALFA 1981
C.Fini, A.Floridi, V.N. Finelli, B.Wittman-Liebold, Laboratory Methodology in Biochemistry, CRC Press, Florida, 1990


Title
Proteins: Structure and Function
Code
ÚCHV/PSF/03
Teacher
Sedlák Erik, Podhradský Dušan
ECTS credits
5
Hrs/week
3/-
Assessment
Examination
Semester

T/L method
Lecture
Objective
To develop students’ ability to suggest/use suitable methods for determination of structural and functional properties of proteins.
Content
Chemical properties of polypeptides. Detection of amino acids, peptides and proteins. Biosynthesis of proteins: procaryotes. Biosynthesis of proteins: eucaryotes. Topogenesis. Protein folding. Post-translational covalent modifications of polypeptide chains. Physical interactions determining the properties of proteins. Conformational properties of polypeptide chains. Proteins in solution and in membranes. Interactions with other molecules. Allostery. Degradation. Extremophiles.
Recommended reading 
T.E. Creighton: Proteins - structures and molecular properties, 1993, W.H. Freeman and Company - New York.
Alan Fersht: Structure and mechanism in protein science, W.H. Freeman and Company, New York, 1999.
Robert A. Copeland: Enzymes (2nd edition), Wiley-VCH, 2000.

Elective courses

Title
Bio-organic Chemistry
Code
ÚCHV/BOC/03
Teacher
Gonda Jozef
ECTS credits
5
Hrs/week
3/-
Assessment
Examination
Semester

T/L method
Lecture
Objective
To teach students the fundamental principles for the construction of bioorganic molecular models of biochemical processes using the tools of organic chemistry.
Content
Introduction: Basic considerations; proximity effects in biochemistry, Molecular adaptation. Molecular recognition at the supramolecular level. Bio-organic chemistry of amino acids and polypeptides: chemistry of the living cells, Analoguey between organic reactions and biochemical tranformations, Chemistry of the peptide bond: nonribosomal peptide formation, asymmetric synthesis of amino acids, asymmetric synthesis with chiral organometalic catalysts, Transition state analogues. Antibodies as enzymes. Chemical mutations. Molecular recognition and drug design. Bio-organic chemistry of the phosphate groups and polynucleotides:d energy storage, DNA intercalates, RNA molecules as catalysts. Enzyme chemistry: introduction to catalysis and enzymes, Multifuntional catalysis and simple models. Alpha-chymotrypsin. Other hydrolytic enzymes. Strereoelectronic control in hydrolytic reactions. Immobilised enzymes. Enzymes in synthetic organic chemistry. Enzyme-Analogue-Built polymers. Design of molecular clefts. Enzyme Models: host-guest complexation chemistry, New developments in crown ether chemistry, Membrane chemistry and micelles. Polymers. Cyclodextrins. Enzyme design using steroid template. Remote functionalisation reactions. Polyene biomimetic cyclisations. Metal Ions: in proteins and biological molecules. Carbopeptidase A. Hydrolysis of amino acid esters and peptides. Iron and oxygen transport. Cooper ion. Cobalt and vitamin B12 action. Oxidoreduction. Pyridoxal phosphate. Biotin.
Recommended reading 
Voet J.: Biochemistry, Springer Verlag, 1998
Dugas H.: Bioorganic Chemistry, Springer Verlag, 1999.


Title
PC in Biomacromolecule Analysis
Code
ÚCHV/VPC/01
Teacher
Pristaš Peter, Podhradský Dušan
ECTS credits
4
Hrs/week
2/1
Assessment
Examination
Semester

T/L method
Lecture, Practical
Objective
To have students perform analysis of nucleotide and amino acid sequences with personal computers (PC) and free software (BioEdit, Prophet, GeneDoc, RasMol, VNTI-Viewer) and web-based analysis tools (blast, fasta, clustal). To introduce students to public biological databases (PubMed, GenBank, SwissProt) and data mining. To teach methods of specialised analysis: molecular taxonomy, phylogenetic analysis, prediction of biopolymer structure
Content
Usage of PC and WWW network for biological sequence analysis. History of the Internet, FTP, E-mail services. Freely available biological and biomedicinal databases (PubMed, GenBank, SwissProt). Nucleotide sequence analysis. Protein sequence analysis. Pairwise sequence comparisons: blast software. Multiple sequence comparisons: clustal software. Molecular taxonomy of bacteria. Evolutionary and phylogenetic analysis. Secondary and tertiary structure prediction.


Title
Xenobiochemistry
Code
ÚCHV/XBCH/03
Teacher
Podhradský Dušan, Györyová Katarína, Sabolová Danica
ECTS credits
5
Hrs/week
3/-
Assessment
Examination
Semester

T/L method
Lecture
Content
Basic characterisation of xenobiochemistry and xenobiotics. Toxines, pesticides and artificial agents in food. Medicines: their division and characterisation. Metabolism of strange matter in the liver. Categories of biotransformation. Oxygen and its reactive forms. Peroxizomes and the mechanism of oxidation harm. Peroxidation of lipids. Influence of hard metal ions on animal texture. Hemoproteine P 450.
Recommended reading 
Z. Ďuračková: Voľné radikály a antioxidanty v medicíne, Slovak akademik press 1998
Z.Vodrážka : Biochémia, Academic Press Praha, 1992

Study programme    Bioorganic Chemistry

(Full-time master)

Code   Title   ECTS   Credit   Hours/week   Assessment    Recommended Year/Semester

Compulsory courses

ÚCHV/BOC/03
Bio-organic Chemistry
5
3/- 
Examination
1/1 
ÚCHV/DPCO1a/00
Diploma Work
2
-/- 
Recognition
1/1 
ÚBEV/CYTF/03
Cytology
4
3/- 
Examination
1/1 
ÚCHV/DPCO1b/00
Diploma Work
6
-/- 
Recognition
1/2 
ÚCHV/DPCO1c/03
Diploma Work
8
-/- 
Recognition
2/3 
ÚCHV/SDP/03
Seminar on Diploma Work
2
-/2 
Assessment
2/3 
ÚCHV/DPCO1d/03
Diploma Work
30
-/- 
Recognition
2/4 

Compulsory elective courses

ÚCHV/KOC1/01
Quantum Chemistry
5
3/1 
Examination
1/1 
ÚCHV/OS/03
Organic Synthesis
5
2/1 
Examination
1/1, 2/3 
ÚCHV/FMCH/04
Medicinal Chemistry
6
3/1 
Examination
1/1 
ÚCHV/TOXOL/03
Toxicology of Organic Compounds
4
3/- 
Examination
1/1 
ÚCHV/MM1/00
Molecular Modelling
4
1/3 
Assessment
1/1, 2/3 
ÚCHV/ENZ/04
Enzymology
5
3/- 
Examination
1/1, 2/3 
ÚCHV/FAK1a/07
Pharmacology I
4
2/2 
Assessment
1/2 
ÚCHV/SAL/06
Synthesis and Analysis of Drugs
6
3/1 
Examination
1/2 
ÚCHV/ZCI/04
Basic Cheminformatics Tools
2
2/1 
Examination
1/2 
ÚCHV/PATF/03
Patobiochemistry
3
2/- 
Examination
1/2 
ÚCHV/NCH/03
Neurochemistry
5
2/1 
Examination
1/2 
ÚCHV/NMR1/00
1D & 2D NMR Spectroscopy
6
2/3 
Examination
1/2 
ÚBEV/MB1/01
Molecular Biology
4
3/- 
Examination
1/2 
ÚCHV/SVK1/00
Student Scientific Conference
4
-/- 
Assessment
1/2, 2/4 
ÚCHV/FAK1b/07
Pharmacology II
6
2/2 
Examination
2/3 
ÚCHV/BACH1/03
Bioanalytical Chemistry
5
2/1 
Examination
2/3 
ÚBEV/NFYZ/07
Neurophysiology
3
2/- 
Examination
2/3 
ÚCHV/HZ1/00
Heterocyclic Compounds
4
2/1 
Examination
2/3 
ÚBEV/BTR1/06
Plant Biotechnology
6
2/3 
Examination
2/3 
ÚCHV/STA1/03
Structure Analysis
6
2/2 
Examination
2/3 

Elective courses

ÚCHV/KC/03
Cosmetic Chemistry
4
2/1 
Examination
1/1 
ÚBEV/IMUF/03
Immunology
3
2/- 
Assessment
1/1 
ÚCHV/BFP/04
Biochemistry of Physiological Processes
8
3/3 
Examination
1/2 
ÚBEV/NAT/06
Neuroanatomy
4
1/2 
Examination
1/2 
ÚCHV/CMG/03
Chemical Management
5
3/- 
Examination
2/3 
ÚCHV/PCH1/00
Food Chemistry
4
2/1 
Examination
2/3 
ÚBEV/LR1/03
Healing Plants
3
2/- 
Examination
2/3 

Course units


Compulsory courses

Title
Bio-organic Chemistry
Code
ÚCHV/BOC/03
Teacher
Gonda Jozef
ECTS credits
5
Hrs/week
3/-
Assessment
Examination
Semester
1
T/L method
Lecture
Objective
To teach students the fundamental principles for the construction of bioorganic molecular models of biochemical processes using the tools of organic chemistry.

Content
Introduction: Basic considerations; proximity effects in biochemistry, Molecular adaptation. Molecular recognition at the supramolecular level. Bio-organic chemistry of amino acids and polypeptides: chemistry of the living cells, Analoguey between organic reactions and biochemical tranformations, Chemistry of the peptide bond: nonribosomal peptide formation, asymmetric synthesis of amino acids, asymmetric synthesis with chiral organometalic catalysts, Transition state analogues. Antibodies as enzymes. Chemical mutations. Molecular recognition and drug design. Bio-organic chemistry of the phosphate groups and polynucleotides:d energy storage, DNA intercalates, RNA molecules as catalysts. Enzyme chemistry: introduction to catalysis and enzymes, Multifuntional catalysis and simple models. Alpha-chymotrypsin. Other hydrolytic enzymes. Strereoelectronic control in hydrolytic reactions. Immobilised enzymes. Enzymes in synthetic organic chemistry. Enzyme-Analogue-Built polymers. Design of molecular clefts. Enzyme Models: host-guest complexation chemistry, New developments in crown ether chemistry, Membrane chemistry and micelles. Polymers. Cyclodextrins. Enzyme design using steroid template. Remote functionalisation reactions. Polyene biomimetic cyclisations. Metal Ions: in proteins and biological molecules. Carbopeptidase A. Hydrolysis of amino acid esters and peptides. Iron and oxygen transport. Cooper ion. Cobalt and vitamin B12 action. Oxidoreduction. Pyridoxal phosphate. Biotin.

Recommended reading 
Voet J. : Biochemistry, Springer Verlag, 1998
Dugas H.: Bioorganic Chemistry, Springer Verlag, 1999.


Title
Diploma Work
Code
ÚCHV/DPCO1a/00
Teacher

ECTS credits
2
Hrs/week
-/-
Assessment
Recognition
Semester
1
Objective
To allow a student, under the guidance of supervisor, to learn the problems to be solved within diploma work, elaborates the plan of his/her experiments and starts the experimental work.
Content
Study of the recommended literature; literature search in the problems of diploma work; preparation and starting of experiments.
Recommended reading 
According to the approved setting of diploma work.


Title
Cytology
Code
ÚBEV/CYTF/03
Teacher
Mišúrová Eva
ECTS credits
4
Hrs/week
3/-
Assessment
Examination
Semester
1
T/L method
Lecture
Objective
To provide students with knowledge of basic principles of microscopic and submicroscopic cell structure and function.
Content
Levels of living system organisation. Characteristics and comparison of prokaryotic and eukaryotic plant and animal cells. Microscopic, submicroscopic and molecular structure and function of individual cell components. Nuclei and cell division.
Alternate courses
ÚBEV/CYT1/02
Recommended reading 
Alberts, B., Bray, D., Lewis, J. et al.: Molecular Biology of the Cell. Garland Publishing Inc., New York, London, 1994


Title
Diploma Work
Code
ÚCHV/DPCO1b/00
Teacher

ECTS credits
6
Hrs/week
-/-
Assessment
Recognition
Semester
2
Objective
To have students perform the experiments required for diploma work.
Content
Individual experimental work of student and study of required literature.
Prerequisite courses
ÚCHV/DPCO1a/00
Automatic rerequisite courses
ÚCHV/DPCO1a/00
Recommended reading 
According to the approved setting of diploma work and literature search.


Title
Diploma Work
Code
ÚCHV/DPCO1c/03
Teacher

ECTS credits
8
Hrs/week
-/-
Assessment
Recognition
Semester
3
Objective
To have students perform the experiments required for diploma work and to process their results.
Content
Individual experimental work of student and continuous processing of the obtained results.
Prerequisite courses
ÚCHV/DPCO1b/00
Recommended reading 
According to the approved setting of diploma work and student’s own literature search.


Title
Seminar on Diploma Work
Code
ÚCHV/SDP/03
Teacher

ECTS credits
2
Hrs/week
-/2
Assessment
Assessment
Semester
3
T/L method
Practical
Objective
To teach the student to prepare a presentation of his/her own results, to respond to criticism, to participate in scientific discussion, and to fulfil formal requirements of written diploma work.
Content
Presentation of researched information and own experimental results; scientific discussions and writing of scientific text.
Recommended reading 
According to field of diploma work.


Title
Diploma Work
Code
ÚCHV/DPCO1d/03
Teacher

ECTS credits
30
Hrs/week
-/-
Assessment
Recognition
Semester
4
Objective
To have students finish their experiments, process their results, and learn how to write a thesis.
Content
Finishing the student’s experimental work, processing of the obtained results and writing the diploma work.
Prerequisite courses
ÚCHV/DPCO1c/03
Recommended reading 
According to the approved setting of diploma work and student’s own literature search.

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