201-1-9551 Linear Algebra for Biotechnology

muskrateurekaBiotechnology

Feb 12, 2013 (4 years and 8 months ago)

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Ben
-
Gurion University of the Negev

Faculty of Engineering Sciences


Department of Biotechnology Engineering





Undergraduate & Graduate Courses


Syllabi




201
-
1
-
9551 Linear Algebra for Biotechnology

Complex numbers, systems of linear equations and
matrices, the rank of a matrix. vector spaces, basis
and dimension, linear transformations, the kernel and the image of a linear transformation, inner product
spaces, Gram
-
Schmidt process, matrix representation of a linear operator and change of basis, det
A=0,
inverse matrix, characteristic polynom, eigenvalues, eigenvectors, diagonizable matrices, and symmetric
matrices.



201
-
1
-
9561 Differential and Integral Calculus 1 for Biotechnology

Limits and continuity of a function. differentiation, differentiabili
ty and the fundamental theorem of
differential calculus, extremal values, Rolle's theorem, second derivative, curve tracing, l'Hopital's rule,
the differential as a tool for approximated calculations, Taylor's theorem, integral calculus for functions
of on
e variable: definite integrals, integration methods, generalized integrals, ordinary differential
equation and solution by variable separation, equations of planes and lines.



201
-
1
-
9571 Differential and Integral Calculus 2 for Biotechnology

Vectors and p
arametric representation, 3D coordinates and vectors, algebra of scalars and vectors.
Vector analysis: line integrals and surface integrals, velocity and acceleration, normal lines and
curvature, representation in polar coordinates. Functions of several v
ariables, basic differential calculus
of such functions, partial derivative, the chain rule and the directional derivative, exact derivative, the
gradient and its properties, extremal problems, multiple integration: definition, applications and
techniques,

change of variables., Green's, Stokes' and Gauss' formulas, numerical series, sequences
and series of functions, power series, convergence.



201
-
1
-
9581 Ordinary Differential Equations for Biotechnology

First order differential equations: linear, separabl
e, exact, integrating factors, homogeneous equations,
existence and uniqueness theorem (without proof), linear differential equations of order n, systems of
linear differential equations, solution with matrix calculus, solution of differential equations by

power
series, integral transform methods: Laplace and Fourier, Bessel's equation.



201
-
1
-
9591 Partial Differential Equations for Biotechnology

Categorization of second order PDE’s, canonical forms, existence and uniqueness theorem (without
proof), the wa
ve equation (in brief), the heat equation, the Laplace equation, problems of boundary and
initial conditions, Green’s functions, solution methods : characteristic lines, variable separation, Fourier
series, Green’s and Bessel’s functions. Introduction to a
symptotical methods: perturbations for obtaining
approximate solution.



369
-
1
-
1001 Chemistry Laboratory for Biotechnology

Acids and Bases: Titration, hydrolysis of salts, buffer solutions, determination of dissociation constant
(Ka) of a weak acid, titr
ation curve of a polyprotic acid. Sparingly Soluble Salts: Determination of the
solubility
-
product constant (Ksp), solubility and enthalpy (DH) of the dissolution of a sparingly soluble
salt. Oxidation
-
Reduction Phenomena: General properties, electrochemic
al cells, determination of
thermodynamic constants (DH, DS, DG). Colorimetric Analysis: Determination of the concentration of a
solution using a spectrophotometer. Chemical Kinetics: Determination of the reaction rate, the order of
reaction and the specifi
c rate constant (k).



369
-
1
-
1002 Organic Chemistry Laboratory for Biotechnology

Methyl orange synthesis. Caffeine extraction from tea. Chromatography of spinach extract.

Oxydation
oleic acid with potassium permanganate. Esterification and hydrolysis. Redu
ction of vanillin with sodium
borohydride.



369
-
1
-
1003 Biochemistry Laboratory for Biotechnology

Purification and isolation of lysozyme from hen egg yolk. Protein analysis
-

separation by electrophoretic
methods. Factors affecting enzymatic activity
-
Alkal
ine Phosphatase. Covalent immobilization of
phosphatase on Agarose beads. Photophosphorylation in isolated thylakoids. Electronic Biochemical
tools (Computers).



369
-
1
-
10
04 Microbiology Laboratory for Biotechnology


Growth inhibition of bacteria by antibiotics. Staining bacteria. Isolation of bacteria on solid media.
Growth curve of bacteria and the effect of environmental factors. Enrichment and isolation of soil
bacteri
a (antibiotic producers, chemoheterotrophic bacteria, thermophilic bacteria, nitrogen fixers and
bacteria utilizing aromatic compounds as a carbon source). Bacterial aerobic/anaerobic metabolic
activities (Glycolysis, fermentation, respiration), biochemica
l identification tests. Regulation of enzymatic
activities (the lactose operon). Life cycle of bacteriophages (lytic and lysogenic cycles. Drug resistance).
Induction of penicillinase.



369
-
1
-
1005 Laboratory in Genetic Engineering

Cloning of a gene into
expression vector and following its expression at the protein

level. Recombinant DNA technology (DNA isolation, digestion with restriction enzymes, ligation, PCR
and analysis in agarose gels) as well as protein separation and immunodetection in Western blo
ts and
colony lifts.



369
-
1
-
1006 Laboratory in Biotechnology Engineering

Flow. Heat and mass transfer. Mixing. Monitoring of biological processes. Batch and continuous
reactors. Fermentation. Mammalian bioreactors. Advanced Microscopy (fluorescence). Bios
ensors.
Methods for quantification of macromolecules in Immunology. Enzymatic immobilization. Mammalian
cell culture. Microbial Processes.



369
-
1
-
1012 Introduction to Statistics for Biotechnology


Sampling and normal distribution. The sampling distributio
n of means. Central limit theorem. Point
estimation. Properties and principles of point estimation. Method of maximum likelihood. Interval
estimation. Confidence interval for mean for known and unknown variances. T
-
distribution. Confidence
interval for pro
portion. Confidence interval. Properties of confidence interval. Calculation sample size for
given confidence interval. Hypotheses testing. General problem of statistical tests of hypotheses.
Hypotheses and tests. Level of significance. Rejection region. P
-
value. Type of errors, power of test.
Hypotheses testing for normal model. Calculation of errors and power. Calculation sample size.
Population mean for unknown variance. Population proportion for Bernoulli experiment series.
Comparison of two samples. Hy
pothesis test about difference between two populations means for
independent samples. Hypothesis test about difference between two populations means for dependent
samples. Analysis of frequencies tables.
χ
2



test. Statistical association between two varia
bles.
Correlation coefficient. Linear regression. One way analysis of variances (ANOVA). Non
-
parametric
tests. Spearman correlation coefficient. Exact Fisher Test. Test Mc Nemar.



369
-
1
-
1073 Laboratory for Separation Processes


Separation of biological a
ctive materials: centrifugation, ultra filtration (membrane), aqueous two
-
phase
extraction, gel permeation and affinity chromatography, electrophoresis, freeze
-
drying.





369
-
1
-
1081 Control in Biological Systems


Mathematical models of biological systems,

physical models, control theory, feedback systems,
biological receptors, hormone, physiological and neural control, pressure and fluxes, breathing, heat
control.





369
-
1
-
2011 General Chemistry A for Biotechnology


Basic principles in chemistry: atom, mo
lecule, elements, isotopes, the periodic table, valency, chemical
reactions, compounds, stoichiometry, radioactivity. Atomic structure through the laws of quantum
mechanics, the chemical bond, ideal and real gases, ions, electrochemistry.



369
-
1
-
2021 Gen
eral Chemistry B for Biotechnology


Acids and bases, titration, chemical


and ionic equilibrium calculations, Le Chatelier’s


Principle, pH,
buffer solutions, solubility products, chemical kinetics, rates and order of reactions, effect of temperature
and c
atalyst.



369
-
1
-
2031 Principles of Organic Chemistry A for Biotechnology


Hybridization of carbon, alkanes, alkenes, alkynes, cycloalkanes, isomers, spectroscopic methods (UV,
IR, NMR, MS) and chromatography, aromatic compounds, resonance, nucleophylic s
ubstitutions and
elimination reactions, Grignard Reagent, alcohols, ethers, aldehydes, ketones, sugars, chemical and
enzymatic reactions.



369
-
1
-
2041 Principles of Organic Chemistry B for Biotechnology


Optical isomerism, carboxylic acids and derivatives

(chlorides, esters, amides, polyesters, polyamides),
nitrogen containing compounds (amines, amides, nitriles, diazo compounds), amino acids, proteins,
natural products, polymers and biopolymers.



369
-
1
-
2051 Principles of Biochemistry A for Biotechnology



Foundations of Biochemistry in Living Organism, Cells and Biomolecules. Water: Structure and
Interactions with Dissolves Biomolecules. Structure of Biomolecules: Proteins, Lipids, Carbohydrates,
Nucleotides. Enzyme catalysis and application in Biotechno
logy Biological Membranes and Transport.



369
-
1
-
2061 Principles of Biochemistry B for Biotechnology


Bioenergetics and Metabolism: thermodynamics of Bioenergetic processes; oxidation
-

reduction
reaction


glycolysis and catabolism of hexoses; biochemical
cycles; photosynthetic reactions;
macromolecule biosynthesis. Integration of this knowledge into Biotechnology and the production of
biological materials by microbial fermentation.


Biochemistry of Information Pathways: Genes and
Chromosomes, DNA and RNA M
etabolism; Regulation of Gene Expression; Genetic Engineering;
Recombinant DNA Technology; Application in Biotechnology Engineering.



369
-
1
-
2071 Principles of Chemical Kinetics for Biotechnology


Chemical Kinetics: introduction, reaction rate, temperatur
e dependence of reaction rate, stationary state,
simultaneous reactions, following reactions, unimolecular reactions, chain reactions, explosions,
heterogeneous reactions. Kinetic theory of gases: Botlzmann distribution, velocity distribution, averaged
pro
perties, pressure, reduced mass, collision rate, reaction rate, temperature dependence of reaction
rate.



369
-
1
-
3012 The Cell

Historic background. Single cells & multicellular organisms: survival issues. Cell structure: cell wall, cell
membrane, organell
es, cytoplasm & nucleus. Cellular specializations. Cellular components: atoms,
chemical bonds, small molecules: inorganic


(water, salts) and organic (sugars, lipids, amino acids,
nucleotides). Polymers: proteins, polysaccharides, nucleic acids. Physical a
spects: pH, temperature,
light, diffusion of solutes. Transport of solutes & osmoregulation. Extreme environments. Cell division in
prokaryotes & eukaryotes, mytosis & meiosis. Intercellular communication.



369
-
1
-
3013 The Plant

The plant cell, systematic
s: from Protista to higher plants, structure and function of cells, tissues and
organs of the higher plant, growth and development, biotechnological aspects in algae and plants.



369
-
1
-
3022 Invertebrates


Diversity and classification of invertebrates, bo
dy plane, physiology, locomotion, reproduction, nutrition,
defense mechanisms and sensory organs, symbiosis, biomechanics


and calcification, architecture and
function, the kingdom of extreme environments


terrestrial and aquatic strategies, biotechnologi
cal
applications.



369
-
1
-
3023 Vertebrates

Characterization of the chordata, phylogenesis and classes of the vertebrata, breathing, transport
systems, excretion and reproduction systems, embryonic development, skeletal structure and


function,
sensory or
gans.



369
-
1
-
3031 Genetics for Biotechnology

Mendel’s laws: First law


the existence distinct genes in pairs, independent segregation; Second law


interaction between genes. Genes and Chromosomes: Mitosis


meiosis (Quick repetition); Sex
determination
; Chromosomal basis of heredity; Crossing over, genetic and molecular; Chromosomal
aberrations. Gene Mapping: Gene linkage, linkage to the X chromosome; Recombination; Classic gene
mapping. Genes in organelles: Cytoplasmic inheritence; Maternal inheritence
; Mitochondrial gene
structure (in comparison to nuclear genes). Basic prokaryotic genetics: Chromosome structure;
Operons; Gene transfer methods; Molecular basis of dominant and recessive characters. Environmental
effects. Genetics of quantitative traits.

Population genetics.



369
-
1
-
3041 General Microbiology for Biotechnology


Historic background. Cell structure & function: eukaryotes & prokaryotes, Cell wall & cell membrane
structure, nucle
us & cytoplasm, transport mechanisms, osmoregulation, organelles. Chromosome
structure & cell division.


Transcription & translation in eukaryotes & prokaryotes. Energy metabolism:
heterotrophic & chemolithotrophic processes (aerobic & anaerobic), bacteria
l photosynthesis. Anabolic
& catabolic processes. Growth characteristics of microorganisms, batch & continuous cultures. Bacterial
habitats and the transformations of organic matter, extreme environments, the archaebacteria. Viruses:
structure, systematics
, reproductive cycle & lysogeny. Microbiogeochemistry. Genetics of
microorganisms & metabolic control mechanisms. Symbiosis & pathogenesis. Biotechnology (industrial
syntheses, antibiotics, food fermentations).



369
-
1
-
3051 Nucleic Acids for Biotechnology


DNA: structure, genetic code, replication, organization. RNA: various types of RNA, structure and
function, degradation. Transcription: RNA polymerase, factors involved in transcription. Translation and
protein synthesis: ribosome structure and function,

stages of protein synthesis. Regulation of gene
expression: various levels of regulation.



369
-
1
-
3061 Genetic Engineering for Biotechnology


This course focuses on studying the principles and applications of genetic engineering techniques. It
includes:
Production of recombinant DNA, restriction enzymes, plasmids, gene isokation, cDNA library,
genomic library, southern blot, northern blot, western blot, the polymerase chain reaction (PCR)
technology, gene structure and regulation, genetic transformation a
nd gene expression in prokaryotic
cells.



369
-
1
-
4001 Introduction to Probability for Biotechnology

Descriptive statistics. Population and sample. Classification of variables. Data presenting: statistical
tables, frequencies, frequencies types, graphical
representation. Measures of central tendency. Mode,
Median, Mean. Measures of dispersion. Range, Variance, Standard Deviation. Basic terms of Theory
of Probability. Random experiment, sample space, events, events operations, complementary events.
Defini
tion of probability of event for symmetric sample space. Basic formulas for calculation probabilities
of events. Conditional probability, Bayes’ rule. Independent events. Random variables. Definitions,
discrete and continuous random variables, distributio
n of random variables, mean and variance of
random variable. Special types of random variables. Main properties of special distributions.



369
-
1
-
4031 Principles of Thermodynamics for Biotechnology


Introduction: basic concepts : system, surroundings, syst
em boundaries, temperature, pressure, heat,
work, energy (kinetic, potential, internal), units (intensive and extensive) state, state function, process,
reversibility, reversible work, properties of pure substances. The First Law: conservation of energy, n
on
-

flow and steady flow equations, liquid, vapor, gas, diagrams (P
-
V, P
-
T, T
-
V), equations of state, ideal
gas equation, non
-

ideal gas (van der Waals equation, virial equation of state, cubic equation of state),
reversible non


flow processes
-

constant
volume, constant pressure, adiabatic Irreversible processes,
reversible flow processes, non


steady flow processes.

The Second Law: entropy, entropy of the
universe, entropy changes for ideal gases, heat engine, reversible processes on the T
-
s diagram,
en
tropy and irreversibility, availability, heat engine cycles
-

Carnot, Joule, “Tds” relations, phase
equilibrium, mixtures, chemical potential. The third Law: temperature dependence of S, S for phase
transition, Gibbs free energy, temperature dependence of G
. Kinetic Theory of Gases: postulates,
temperature, pressure, effusion, diffusion, velocity distribution, equations of state.



369
-
1
-
4041 Mechanics of Fluids for Biotechnology


Flow phenomena and physical properties of fluid, viscosity, dimensional analy
sis and similarity. Laminar
and turbulent flow. Friction and drag, Darcy law. Macroscopic balance, mass, momentum and energy
conservation, Bernoulli equation, applications. Microscopic balance, continuity, stress tensor, Navier
-
Stockes equations and bounda
ry conditions. Poiseuille flow. Flow in pipes. Boundary layer and jets/
Flow in porous media.



369
-
1
-
4051 Principles of Heat and Mass Transfer for Biotechnology


Energy conservation for non
-

isothermal systems, heat capacity. Mechanism ot heat transfer,
conduction and convection. One dimensional systems, boundary conditions, thermal resistance, fins.
Two
-

dimensional systems. Unsteady
-

state conduction. Convective heat transfer, dimensional analysis,
boundary layer, forced and netural convection. Radiativ
e heat transfer.





369
-
1
-
4061 Introduction to Materials Engineering for Biotechnology


Mechanical properties; mechanical fractures; plasticity; stess
-
strain curves; Young modulus; Poison
ratio.


Types of materials: metals; ceramics; polymers; composites.



Crystalline and amorphous materials. Basics of crystallography; x
-
ray and electron diffraction. Natural
biological materials: biopolymers, biominerals. Advanced materials.



369
-
1
-
4071 & 369
-
1
-
4072 Senior Project A & B


Annual Engineering project condu
cted in the senior year. The project is about 250 hours. Various topics
will be offered by faculty members as well as R&D personnel from industry.





369
-
1
-
4081 Bioreactors


Heat and mass balances. Batch and continuously stirred reactors. Residence time d
istribution.
Biotechnological processes. Kinetics of microbial growth. Product and medium utilization. Transfer
phenomena in microbial systems. Non
-
Newtonian flow. Desgin and analysis of biological reactors.
Analysis of complex microbial populations. Stabi
lity f bioreactor operation with complex population.



369
-
1
-
4091 Personal Computer


Introduction to computer system and overview of the NT operating system. Working with Electronic mail
and the Internet. Working with Word processor Word 2000 and the Elec
tronic sheets
-

Excel 2000.
Using the Presentation software Power Point. Creating Simple drawings, photos manipulation and using
compression software. Connecting via Telnet and ftp to Unix OS.



369
-
1
-
4141 Bioinformatics


Genome sequence analysis (homolog
y searching, scoring matrices, sequence alignment, genome
mapping and assembly). Functional genomics : array technology & uses (gene discovery, disease
diagnosis, drug discovery, toxicological research); data analysis (error analysis, clustering
-
PCA,
decis
ion trees, correlations, SOM). Gene networks
-

logic based models, qualitative methods quantitative
methods. Metabolic pathways
-

measurements and analysis. The genomics and proteomics projects,
data basis on the web.



369
-
1
-
4151 Dynamics of Biological Sys
tems


Introduction to statistical thermodynamics. Introduction to complex fluids: polymers, surfactant and
phospholipid solutions, and more. Mathematical
-
physical modeling of biological systems. The relation
between active and passive behavior. Architectur
e and function of biological membranes and the
cytoskeleton. Actin and microtubule networks. Kinetics and stability of polymerization of microtubules
and actin filaments. Dynamics of DNA. Kinetics of reactions in DNA. Cell adhesion. Biological model
system
s.



369
-
1
-
4161 Dynamics and Control


Introduction to process control. Modeling: mathematical description of processes, modeling
considerations for control purposes. Dynamic analysis: numerical solutions and linearization, Laplace
transform and its use fo
r solution of differential equations, transfer function, dynamic behavior of first
-

and second
-

order systems and of higher order systems. Feedback control: dynamic behavior of
feedback controlled systems and their stability, design of feedback controllers

and troubleshooting,
frequency response analysis and its use for design of feedback control. Advanced control: systems with
"dead time" or "inverse response", multiple loops. There will be many examples from biotechnological
processes.



369
-
1
-
5011 & 369
-
1
-
5021 Engineering Analysis of Biological Systems A & B


Mathematical models of biological systems. Various models. Stochastic and deterministic approaches.
Elements of construction biological models. Statistical methods for determination of parameters in

biological models.



369
-
1
-
5041 Microbial Biotechnology A


Introduction to applied and industrial microbiology. Regulation mechanisms in microorganisms and their
role in the production of primary and secondary metabolites. Introduction to fermentations.
Alcoholic
fermentations and the production of beer, Wine and distilled spirituous liquors. Lactic acid fermentations
and its application in dairy products. Microbial processes for the production of energy from agricultural
Waste. Production of chemical sol
vents by microorganisms


the acetol
-

butanol fermentation.
Production of biochemical from microalgae.





369
-
1
-
5051 Microbial Biotechnology B


Antibiotics


Discovery, activity, biosynthetic and semi
-
synthetic production and biochemical


regulation
of p
roduction processes. Production of therapeutic metabolites by microorganism: hormones, interferon.
Microbial production of vitamins, polysaccharides, enzymes and amino acid. Microbial antagonism and
its use for biological control of plant diseases


produc
tion of biopesticides. Biological Warfare. Patents
and proprietary rights in biotechnology.



369
-
1
-
5071

Food Biotechnology


New concepts in food biotechnology; functional foods, genetically modified foods. Functional foods:
special dietary foods: dietary

supplement; infant formulas, medical foods and weight control foods. Dairy
ingredients as a source of functional foods. Pre
-

and Pro biotics. Fats, oils and there effects on health
and disease.


The soybean as a source of bioactive molecules. Dietary fibe
r and its physiological
effects. Antioxidants and their effect on health. Genetically modified foods: aspects need to consider.
Regulations.



369
-
1
-
6011


Molecular Aspects of Biomaterials


Main groups of biological materials of structural significance Su
pramolecular structures: cellulose, chitin,
collagen, lignin etc. Hierarchical structures biological composites. Biological mineralized composites.


Bones, teeth, sea
-
shells etc.


Characterization: microscopy methods, elements of spectroscopy.
Biomimetics
materials. Biocomatability.



369
-
1
-
6041 Bioelectronics


This course is an introduction to some newer fields in biotechnology, namely biosensors, biochips and
nanobiotechnology.


Biosensors include a study on biospecific entities, transducers (optical fib
ers
(chemiluminescent, fluorescent and bioluminescent), piezoelectric crystals, micro
-

and ultra
-
electrodes),
chemical immobilization of sensor surfaces and their analysis.


Examples studied will be
immunosensors, whole
-
cell bioreporter sensors, amperometr
ic enzyme biosensing and mass acoustic
sensing.


Micro
-
array and biochip technologies will be studied in the context of gene discovery,
bioinformatics, proteomics and drug discovery.


Nanobiotechnology, will include atomic force
microscopy, DNA
-
scaffolds,
polymer nano
-
electronics and nano
-
colloids.



369
-
1
-
7011 Environmental Microbiology


Basic ecological principles of aquatic and terrestriel habitats and their effects on microbial communities.
Positive and negative interactions among microbial communities
. Water microbiology and public health.
Methods for measurements of microbial numbers, biomass and activity in natural habitats.
Biogeochemical cycling of carbon, nitrogen, sulfur and phosphorus. Effects of abiotic factors and
extreme habitats on microorga
nisms. Microbial interaction with xenobiotics and pollutants. Microbial
treatments of liquid and solid wastes. Plant
-
microbe interactions: symbiosis, plant diseases. Microbial
pesticides and biological control of plant pathogens.



369
-
1
-
7031 Introduction

to Water Pollution Control


Water sources: groundwater and surface water; Water quality parameters and standards; Water
consumption and supply; Water treatment: gravitational sedimentation, flocculation, filtration;
Wastewater characterization; Collection

and disposal of wastewater; Mass balance of oxygen and
organic matter in a river; Wastewater treatment: Primary treatment, biological treatment; the Activated
Sludge system.



369
-
2
-
5361 Biocatalysis in Organic Synthesis


Classification of enzymes. Metho
d of production/isolation of enzymes. Enzymes as Catalysis in water
and organic solvents. Immobilization of enzymes and/or Microorganisms. Reaction engineering for
enzyme
-
catalyzed biotransformations. Study of processes catalyzed by hydrolyses, oxidoreduct
aces,
glycosidases, tranferases


and lyases. Design of new catalysts by site
-
selective modification, catalytic
antibodies.



369
-
2
-
6411 Plant Secondary Metabolite Production


The course imparts comprehensive know
-
how in basic and applied aspects of second
ary metabolite
production in plants by biotechnological means.


Topics covered are role and variation of secondary
metabolites in the plant kingdom; preparation of cell and root cultures and their growth in bioreactors;
effect of physical and nutritional f
actors on growth of cells and roots and on the production of secondary
metabolites; production in a two
-
phase system; biotransformation.





369
-
2
-
6421 Plant Breeding in Tissue Culture


The course imparts comprehensive know
-
how in basic and applied aspects

of plant breeding using
tissue culture methodologies.


Topics covered are organogenesis and somatic embryogenesis as
essential tools in in vitro breeding; protoplast production and somatic hybridization; embryo rescue and
in vitro fertilization; cell cult
ure and somaclonal variation; haploid and triploid plants; methodologies for
genetic transformation.



369
-
2
-
6481 Statistical Thermodynamics of Biological Model Systems


Equilibrium thermodynamics and statistical mechanics. Statistical mechanics of comple
x fluids:
polymers, surfactant and phospholipid solutions, colloidal dispersions, and more. Wetting of Interfaces.
Interactions between rigid interfaces. Flexible interfaces. The connection to biological systems.
Biological model systems: vesicles and lipo
somes, membranes, actin and microtubule networks, folding
and packing of DNA, adhesion of cell
-
like vesicles. The emphasis will be on the use of statistical
thermodynamics to describe the above systems.



369
-
2
-
6521 Tissue and Cell Culture


Animal Cell. G
rowth of


attachment


dependant and suspended cells. Cell lines Identification of
biological materials by cells. Introduction of genes. Hybridoma preparation. Plant cells. Growth methods.
Medium composition. Production of secondary metabolites. Regenerati
on and differentiation. Somatic
embrio cultures. Clonal propagation. Virus
-
free plant. Selection.



369
-
2
-
6541 Proteins: Structure, Purification and Modification


Protein structure and dynamics. Determination of protein structure. Protein purification. Fr
actionation of
crude extracts. Separation of protein by gel electrophoresis and isoelectric focusing. Separation of
protein by gel filtration, ion
-
exchange, hydrophobic, covalent, affinity and HPL
-

chromatography. Large
scale purification. Chemical modific
ation of protein. Modification by oligonucelotide
-
directed
mutagenesis. Post
-
transnational modification of protein. Application of enzymes in biotechnology.



369
-
2
-
6561 Advanced Protein and Cell Separation Technology


Protein recovery. Protein separation
. Precipitation (salting out). Coagulation and floculaton.
Sedimentation. Filrtation chromatography (adsorption, ion
-
exchange, gel filtration, affinity
electrophoresis). Two
-
phase aqueous separation. Reverse micellar extraction of proteins. Principles and
development of novel methods for protein separation. Cell separation and sorting. Scaling up of
separation processes.





369
-
2
-
6601 Surfactants, Interfacial Phenomena, and Application in Biotechnology


Characteristic features of surfactants. Adsorption of

surface
-
active agents at interfaces (solid
-
liquid,
liquid
-
gas, and


liquid
-

liquid). Micelle formation by surfactants. Solubilization of surfactants and organic
media. Reduction of surface tension by surfactants. Wetting and effects of surfactants on wet
ting of solid
surfaces. Foaming of aqueous media by surfactants. Structured liquids: emulsions, microemulsions,
miniemulsions and liposomes. Application of surface
-
active agents in Biotechnology.





369
-
2
-
6611 Biosensors



Definitions, history and market
needs. Target analytes. Sensors based on: enzymes, affinity and whole
-
cells. Transducers: electrodes, photometric and acoustic. Immobilizations techniques: thin films, micro &
nano
-
structures. Invasive, non
-

invasive, and disjointed sensors . Continuous vs
. discontinuous
monitoring . Pitfalls. Quality control. Signal processing. Case studies: immunosensors. Novel
transducers and synthetic receptors. Clinical, environmental, industrial and military applications. Future
prospects. Patents issues. Commercializ
ation. (create your own biosensor).




369
-
2
-
6621 Nanobiotechnology


Nano
-
biotechnology is the manipulation of matter at the molecular level to create new products with
atom by


atom precision. This technological revolution will be described in the contex
t of biotechnology.
The course will describe the principles of scanning probe microscopy: molecular resolution of bio/in
-
organic materials, chemical imaging by scanning force microscopy, the quantification of adhesion forces
between molecules, positioning
signal atoms using proximal probes and finally either destructive or
constructive molecular manipulations. We will elaborate on the problems and constraints of
nanobiotechnology and discuss how these effect the future of molecular lithography. Molecular se
nsors,
molecular manufacturing, biochips and bioelectronics.



369
-
2
-
6641 Microchip Array Technology


This course will summarized all existing state
-
of
-
art microarray technologies as well as introduce new
ideas on the subject. This technology has roots in

rapid and efficient diagnostic as well as molecular
recognition such as DNA hybridization and sequencing analyses. The course will include: molecular
probes, surface functionalization, two
-
dimentional addressing, molecular recognition, optoelectronic
fing
erprint detection, genetic analysis and sequencing, diagnostics, combinatorial technologies,
amplifications technology, automation strategies, microfluidics.





369
-
2
-
6661 Biological Structures Materials


Materials properties, elements of crystallography,

elements of spectroscopy. Main groups of biological
materials of structural significance. Supramolecular structures: cellulose, chitin, collagen, lignin etc.
Biological mineralizes composites. Technological aspects.



369
-
2
-
6681 Marine Biotechnology A


T
he aquatic environment and main oceanic recourses and processes
-

oceanic medium, motion and
circulation, marine habitats and biodiversity. Long
-
term patterns of human usage of marine resources,
aquaculture, biomineralization
-

the appreciative aspects, ex
treme environments, marine natural and
pharmacologically
-
active products, gene pulls and genetic manipulation of marine organisms, biofilms
and biofouling, human impacts, pollution and bioremediation.



369
-
2
-
6691 Marine Biotechnology B



The basis of alg
al classification, algal reproduction, life cycles and evolution, carbon metabolism,
extreme environments and adaptation mechanisms, production of bioactive materials, mass culturing,
exploitation and biotechnology.



470
-
1
-
3606 General Physiology A for B
iotechnology


Introduction to human Physiology


Regulation of metabolism, growth, and energy balance. Membrane
transport mechanisms (1). Membrane transport mechanisms (2). Membrane transport (3). Plasma
composition, fluid balance, concentration
-
dilution.
Glomerular filtration. Tubular transport. Renal failure


hemodialysis and Kidney transplantation. Exocytosis.


Endocrine regulation (1). Endocrine regulation
(2). The autonomic nervous system (1). Structure and function. Secretion and Absorption. Neural
r
egulation of the GI tract. Blood cells
-

structure and function. Gas transport. Lungs


structure and
function, elastic and non
-
elastic properties. Pressure


volume relationship, Work of breathing.
Ventilation


perfusion. Asthma. Reproduction (1). Reprodu
ction (2). Channels in membranes. The
action potential. Cable theory


passive and active properties of membranes.





470
-
1
-
3616 General Physiology B for Biotechnology


The skeletal muscle


contraction. The smooth muscle. Introduction and terms. The elec
trical activity of
the heart. The contractile activity of the heart (1). The contractile activity of the heart (2). Artificial
pacemaking. Organization and terms, cellular components. Electrical activity of the nerve cells. Synaptic
release (1). Synaptic r
elease (2). Postsynaptic mechanisms


excitation and inhibition modulation.
Integration of synaptic inputs. Sensory transduction (1). Sensory transduction (2). Vision


General
organization, optics, ocular dominance. Receptive field properties, associative

areas. Question in
audition. Spinal reflexes. Movement planning and generation. Motor pathologies


tremor, paralysis ect.
Synaptic plasticity’ learning and memory. Cortical plasticity, possible mechanisms. Brain rhythms, sleep
and epilepsy.