Education Programs and Course Descriptions

GRADUATE SCHOOL OF ENGINEERING AND SCIENCES

DEPARTMENT OF PHOTONICS

CURRICULUM OF THE MS PROGRAM IN PHOTONICS SCIENCE AND ENGINEERING

The Photonics Science and Engineering M.S. Program is a jointly operated interdisciplinary program. The Curriculum is supported by the graduate courses available at the Departments of Chemistry, Electrical and Electronics Engineering, and Physics. 

Core Courses
PHOT 500      M.S. Thesis (0-1)NC / 26 ECTS
PHOT 501      Seminar* (0-2)NC / 7 ECTS
PHOT 502      Fundamentals of Photonics I (3-0)3 / 9 ECTS
PHOT 503      Fundamentals of Photonics II (3-0)3 / 9 ECTS
PHOT 504      Quantum Photonics I (3-0)3 / 9 ECTS
PHOT 510      Ethical Issues in Research Methods (0-2)NC / 7 ECTS
PHOT 8XX    Special Studies (8-0)NC/ 4 ECTS

*All M.S. students must register Seminar course until the beginning of their 4th semester.

Each student should take 2 restricted elective and 2 elective courses to obtain 12 credits. The course listings for the various MS Specialization Areas in Photonics are listed below.

Restricted Elective Courses
PHOT 505      Applied Photonics (0-6)3 / 7 ECTS
PHOT 506      Photonic Materials and Devices (3-0)3 / 7 ECTS
PHOT 507      Computational Photonics (3-0)3 / 7 ECTS
PHOT 508      Mathematical Methods in Photonics ** (3-0)3 / 7 ECTS

** This course is mandatory upon the request of student’s advisor.

Elective Courses
Track 1: Molecular photonics and photonic devices:
PHOT 511 Photophysics (3-0)3 / 7 ECTS
PHOT 512 Molecular Photonics (3-0)3 / 7 ECTS
PHOT 513 Molecular Electronics and Devices (3-0)3 / 7 ECTS
PHOT 514 Photovoltaics (3-0)3 / 7 ECTS
PHOT 515 Thin-film Transistors (3-0)3 / 7 ECTS
PHOT 516 Radiation Detectors (3-0)3 / 7 ECTS
PHOT 517 Organic Light Emitting Devices (3-0)3 / 7 ECTS
PHOT 518 Low-dimensional Materials (3-0)3 / 7 ECTS
Track 2: Quantum photonics and optical spectroscopy:
PHOT 521 Quantum Photonics II (3-0)3 / 7 ECTS
PHOT 522 Optical Spectroscopy (3-0)3 / 7 ECTS
PHOT 523 Nonlinear Optics (3-0)3 / 7 ECTS
Track 3: Biophotonics and mediphotonics:
PHOT 531 Biophotonics (3-0)3 / 7 ECTS
PHOT 532 Medical Photonics (3-0)3 / 7 ECTS
PHOT 533 Biomedical Imaging and Image Processing (3-0)3 / 7 ECTS
Track 4: Laser engineering and photonic integrated circuits:
PHOT 541 Lasers (3-0)3 / 7 ECTS
PHOT 542 Laser Engineering (3-0)3 / 7 ECTS
PHOT 543 Optical Instrumentation (3-0)3 / 7 ECTS
PHOT 544 Integrated Photonic Circuits (3-0)3 / 7 ECTS
PHOT 545 Basics of Lighting (3-0)3 / 7 ECTS

Total credit (min.)                              : 21 / 120 ECTS

Number of courses with credit (min.): 7

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Course Descriptions

PHOT 500 M.S. Thesis (0-1)NC/ 26 ECTS

A research topic which can be experimental and/or theoretical has to be pursued. Under supervision of an advisor/s, students write a thesis about topic that is allocated. The requirements set by the İzmir Institute of Technology should be fulfilled.

PHOT 501 Seminar (0-2)NC/ 7 ECTS

The course consists of presentations of new scientific papers from high-profile journals by the students. The purpose of the paper, results, and conclusions must be presented, and a critical discussion of the methods and the results should also be included. Thesis proposal seminar must be presented as well.

PHOT 502 Fundamentals of Photonics I (3-0) / 9 ECTS

The basic descriptions of light as rays (geometrical optics), waves (physical optics), and photons. Electromagnetic theory of light. Reflection and refraction of light rays and waves from planar and curved surfaces.  Statistical optics and photon optics.

PHOT 503 Fundamentals of Photonics II (3-0) / 9 ECTS

Wave propagation through dielectric media and optical waveguides, polarization analysis, generation and detection of light from semiconductor devices and the modulation of light through the electro-optic and acousto-optic effects.

PHOT 504 Quantum Photonics  I (3-0) /9 ECTS

Particles as waves, Schrödinger’s equation. Expectations values, operators, eigenvalues, and stationary states. Dirac formalism. Commutators, unitary transformations, and matrix representation. Symmetry and conservation laws. Free particles, the potential well, and the harmonic oscillator. Quantum theory of light, matter and its interaction.

PHOT 505 Applied Photonics(0-6)3 / 7 ECTS

Design and fabrication of photonic devices such as photodetectors, LEDs and optical circuits; and measurement of optical processes; estimation of process through computational approaches.

PHOT 506 Photonic Materials and Devices (3-0)3 / 7 ECTS

Bulk crystals, single crystals, epitaxial crystals, narrow band-gap, wide band-gap semiconductors, structural characterization, electrical characterization, III-V ternary and quaternary compounds, electron transport within the III-nitride semiconductors, II-IV semiconductors for optoelectronics, II-VI narrow band gab semiconductors, Luminecent materials, quantum wells, band gap engineering, novel materials and selected applications, organic materials for chemical sensing,  packaging materials, photoconductivity, electronic properties of semiconductor interphases, charge transport in ordered and disordered materials,  graphene-based photonics, materials challenges for solar power, photoelectrochemistry and hybrid solar conversion, lighting.

PHOT 507 Computational Photonics (3-0)3/ 7 ECTS

Maxwell’s equations, waveguides and eigenmodes. Finite-difference time domain method, finite-difference frequency domain method, finite element method, Fourier method, contemporary problems in computational photonics.

PHOT 508 Mathematical Methods in Photonics (3-0)3/ 7 ECTS

Complex analysis, Fourier transform theory, linear algebra, vector algebra, ordinary and partial differential equations (e.g., wave equation), special functions (e.g., Bessel functions),  numerical methods for solving ODE’s and PDE’s, eigensystems.

PHOT 510 Ethical Issues in Research Methods (0-2)NC / 7 ECTS

Ethical issues with some examples will be presented. The ethical rules in conduct will be overviewed.

PHOT 511 Photophysics (3-0)3/ 7 ECTS

Helping the students correlate the following topics: electromagnetic spectrum and interaction between material and solar radiation (AM1.5); absorption and emission in molecular structures; determination of ground state and excited state behaviors; photophysical processes (dipole-dipole interaction, electron exchange, quenching, etc); electron transfer processes that starts photochemical processes; differences of photophysical and photochemical processes and their impact on application areas.

PHOT 512 Molecular Photonics (3-0)3/ 7 ECTS

Light-matter interactions, fundamentals of photonics, basic instrumentation, fluorescence spectroscopy, quenching, anisotropy, fluorescence resonance energy transfer, fluorescence sensing, radiative decay engineering, fluorscence microscopy and nanoscopy.

PHOT 513 Molecular Electronics and Devices (3-0)3/ 7 ECTS

Semiconductor and molecular semiconductor definition and basics. Energy technologies (from source to use) and semiconductors. Semiconductor coatings. Optoelectronic applications. Bio- and medical photonics. Metal oxide based photocatalytic degradations. Photodetectors. Solar cells. Light emitting diode-LED and molecular and polymeric correspondences. Lasers. Transistors.

PHOT 514 Photovoltaics (3-0)3/ 7 ECTS

Introduction on semiconductors and controlling the band structures of semiconductors by dopping. Introduction on photovoltaic effect on semiconductors and basics of solar cells. Types of solar cells and state of the art in solar cell technology. Brief introduction on traditional solar cell technologies: c-Si solar cells and bulk thin film solar cells. Limitations in traditional solar cells. Why new generation photovoltaic technologies are needed. Physical structure, working principles, electronic properties and performance of tandem photovoltaic systems. Introduction to impact ionization (multiple exciton generation, MEG). Chemical and physical structures, working principle and electronic properties of quantum dot and mid‐band (intermediate band) solar cells and their relationship with performance of mid‐band solar cells. Introduction to ecxitonic solar cells. Chemical and physical structures, working principle and electronic properties of organic and plastic photovoltaic systems and their relationship with performance of Organic, plastic and hybrid photovoltaic systems. Chemical and physical structures, working principle and electronic properties of dye sensitized and perovskite solar cells.  Definition of the parameters to improve the efficiencies of dye sensitized and perovskite solar cells.

PHOT 515 Thin-film Transistors (3-0)3 / 7 ECTS

The subject-specific course on thin-film transistors (TFT) is organized as one-semester course for Master’s and Ph.D. students, covering related knowledge of TFT device physics, modeling, circuit design, processing, characterization, and display technologies. A term project is required for the students to understand and deepen the design concept along with the theoretical support within the course.

PHOT 516 Radiation Detectors (3-0)3 / 7 ECTS

Modern scientific research based on single photon detection, low energy x-ray detection for synchrotron research, gamma ray detection for nuclear security, terrahertz detection for imaging and material science, ultra sensitive IR detectors for bolometric research, millimeter wave detection for imaging through the barriers will be covered within this master’s level course. Superconducting tunnel junctions, Transition edge sensors, scientific CCD, CMOS an Si-strip detectors, superconducting terahertz detectors and hybrid systems for mm wave detectors will be discussed as introductory levels.

PHOT 517 Organic Light Emitting Devices (3-0)3 / 7 ECTS

Making students, familiar to light emitting diodes and their organic correspondences that are used in energy efficient lighting and display technologies; understand the relationships between the chemical structures and physical properties of organic molecules, energy levels, exciton types and their diffusions; decide thin film and pattern preparation technique; apply experimental techniques and calculations for the determination of electrical parameters during device operation; and design organic light emitting devices.

PHOT 518 Low-dimensional Materials (3-0)3 / 7 ECTS

What is dimension, quantum confinement, low-dimensional structures, formation and synthesis of low-dimensional structures, structural, electronic, magnetic, vibrational, optical and transport properties of materials in two, one and zero dimensions.

PHOT 521 Quantum Photonics II (3-0)3/ 7 ECTS

Quantization of light field, quantum states of light, optical coherence theory, atom-photon interaction (quantum and semi-classical theory),  open quantum systems. Quantum gases.

PHOT 522 Optical Spectroscopy (3-0)3/ 7 ECTS

Basics of light-matter interaction. Common components of different optical spectroscopy techniques. Spectroscopy systems. Absorption and emission spectroscopy. IR and Raman spectroscopy.  Time-resolved spectroscopy. Non-linear spectroscopy. Laboratory work.

PHOT 523 Nonlinear Optics (3-0)3/ 7 ECTS

Overview of basic formalism and classification of nonlinear optical processes; non-phase matched processes, phase-matched processes, slow nonlinear optics, microscopic (quantum) origins of nonlinear susceptibilities. Nonlinear optical susceptibilities; wave propagation and coupling in nonlinear media; harmonic, sum, and difference frequency generation; parametric amplification and oscillation; phase-conjugation via four-wave mixing; self-phase modulation and solitons.

PHOT 531 Biophotonics (3-0)3/ 7 ECTS

Review of fundemantal optics, light-tissue interaction, basics of microscopy, optical biosensors, fluorescence spectroscopy, FRAP, FRET, optogenetics, neurophotonics, photodynamic therapy, optical microscopy methods, confocal microscopy, nonlinear microscopies, optical coherence tomography.

PHOT 532 Medical Photonics (3-0)3/ 7 ECTS

Review of optics, photon-tissue interactions, medical diagnosis and monitoring therapy, theranostics methods and applications, photodynamic therapy, molecular imaging, MRI, SPECT, PET, endoscopy.

PHOT 533 Biomedical Imaging and Image Processing (3-0)3/ 7 ECTS

Biomedical imaging technologies. Image reconstruction and noise reduction techniques. Segmentation and mathematical morphology. Bioimaging in histopathology. Digitized histological slides: sectioning of tissue samples, immunohistochemical staining, image acquisition. Preprocessing of histology image data. Tissue segmentation. Region segmentation. Segmentation and morphological characterization of cell nuclei. Abnormality detection via pattern classification.

PHOT 541 Lasers (3-0)3/ 7 ECTS

Resonant Optical Cavities, Atomic Radiation, Laser Oscillation and Amplification, Characteristics of Lasers, Laser Excitation, Semiconductor Lasers.

PHOT 542 Laser Engineering (3-0)3/ 7 ECTS

Basics and design of Semiconductor lasers, solid state lasers and fiber lasers.

PHOT 543 Optical Instrumentation (3-0)3/ 7 ECTS

Light sources and detectors, noise, optical components, polarization of light and polarizers, designing and building electro-optical systems.

PHOT 544 Integrated Photonic Circuits (3-0)3 / 7 ECTS

On-chip waveguides, lasers and modulators. Design and analysis of on-chip photonic components and systems. Current literature on silicon photonics and III-V system.

PHOT 545 Basics of Lighting (3-0)3/ 7 ECTS

Covers the fundamentals, generalities, and specific applications; Gives priority to people over lighting technology; Provides up-to-date reviews of the role of lighting in visual performance, visual discomfort and visual perception; Delivers detailed reviews of how the lighting of offices, industry, and roads affects people; Examines the role of lighting as it affects human safety, crime, the elderly, and health; Explores how people react to light pollution and how they use lighting controls.

PHOT 8XX Special Studies (8-0)NC/ 4 ECTS

Graduate students supervised by the same faculty member study advanced topics under the guidance of their advisor. 

SELECTIVE COURSES FROM OTHER DICIPLINES

Physics

PHYS  505 Electromagnetic Theory I (3-0)3 ECTS 8

Electrostatics; boundary value problems; multipoles, electrostatics of macroscopic media and dielectrics; magnetostatics; time- varying fields, Maxwell equations; plane electromagnetic waves and wave propagation

PHYS 506 Electromagnetic Theory II (3-0)3 ECTS 8

Wave guides. Covariant formulation of Maxwell’s equations. Special relativistic formulation of electromagnetic theory. Radiation theory.

PHYS 511 Condensed Matter Physics I (3-0)3 ECTS 7

Principles and applications of quantum theory of electrons and phonons in solids. Structure, symmetry and bonding. Electron states and excitations in metals and alloys. Transport properties. Surfaces

PHYS 512 Condensed Matter Physics II (3-0)3 ECTS 7

Principles and applications of the quantum theory of electrons and phonons in solids. Phonon states in solids. Transport properties. Electron states and excitations in semiconductors and insulators. Defects and impurities. Amorphous materials. Magnetism. Superconductivity

PHYS 513 Physics of Semiconductors (3-0)3 ECTS 7

Electronic structure; electrons in periodic structures. Semiconductor band structures. Pseudo-potential and method. Doping in semiconductors. Optical and transport properties of crystalline and amorphous semiconductors. Junction theory. Boltzmann transport equation. Interaction of phonons with semiconductors. Excitions. Semiconductors in magnetic fields. Hall effect. Quantum devices

PHYS 514 Physics of Semiconducting Devices (3-0)3 ECTS 7

Energy bands. Carrier transport phenomena. Bipolar devices: p-n junctions, bipolar transistors. Unipolar devices: MS Contacts, JFET and MESFET, MIS diode, MOSFET. Microwave devices. Photonic Devices: light-emiting diodes, semiconductor lasers, photo-detectors.

PHYS 518 Thin Film Technology (3-0)3 ECTS 7

Review of crystal structures. Vacuum science. Thin film deposition. Evaporation. Plasma. Ion beam. Sputtering. Epitaxy. Chemical methods. Doping (in situ, ex situ). Diffusion. Structure. Defects. Interfaces. Thin film characterization methods: Optical, mechanical, electrical, magnetic. Integrated device technology.

PHYS 519 Surface Analysis Techniques (3-0)3 ECTS 7

Instrumental techniques for the characterization of surfaces of solid materials. The following analysis methods are discussed:X-ray photoelectron spectroscopy (XPS), Auger electron spectroscopy (AES), secondary ion mass spectroscopy (SIMS), Rutherford back scattering (RBS), scanning and transmission electron microscopy (SEM, TEM), energy and wavelength dispersive X-ray analysis; principles of these methods, quantification, instrumentation and sample preparation.

PHYS 520 Applications of Nanotechnology (3-0)3 ECTS 7

Basic physical, chemical, and biological principles in nano-areas.fNanoscale Fabrication.  Nanomanipulation. Nanolithography. Top-down and bottom-up nanofabrication techniques. Self-assembled monolayers/dip-pen. Soft lithography. PDMS molding. Nanoparticles. Nanowires. Nanotubes, Nanocomposites. Nanocharacterization techniques. Electrical microscopy: TEM, SEM, SPM. Nanomedicine applications. Nanosensors.

PHYS 522 Advanced Experimental Methods (3-0)3 ECTS 7

Instrumental techniques for the characterization of surface and bulk of solid materials.The following analysis methods are discussed:X-ray photoelectron spectroscopy (XPS), scanning and transmission electron microscopy (SEM, TEM), energy and wavelength dispersiveX-ray analysis; photolitography, SPM scanning probe microscopy, principles of these methods, quantification, instrumentation and sample preparation.

PHYS 531 Photonic Structures (3-0)3 ECTS 7

Review of Maxwell’s equations, basic crystallography, Fourier series. 1D periodic systems. 2D and 3D photonic crystals. Calculation of the photonic band structure. Plane wave expansion, augmented plane wave method. KKR method. Point and line defects in photonic crystals. Photonic crystal optical fibers. Fermi’s golden rule. Electromagnetic radiation in a photonic crystal, and inhibition of spontaneous emission. Various applications of photonic crystals.

PHYS 532 Applied Quantum Optics (3-0)3 ECTS 8

Review of quantum mechanics, introduction to       quantum optics, photon statistics, atom-light interactions, cavity-quantum electrodynamics, non-         linear processes for single-photon generation, quantum emitters, review of important recent quantum optical experiments.

Chemistry

CHEM 562 Supramolecular Chemistry (3-0) 3 / 7 ECTS

The course includes discussion of the design, synthesis and the applications of macromolecular compounds to areas such as molecular electronics, molecular recognition.

CHEM 573 Biophysical Chemistry (3-0) 3 / 7 ECTS

This course will cover foundations and biological applications of thermodynamics, kinetics, quantum theory and molecular spectroscopy.  This course is to provide foundations for students who wish to study single molecule chemistry, molecular biophysics, and nanobiotechnology.

CHEM 581 Molecular Spectroscopy (3-0) 3 / 7 ECT

Applications of quantum mechanism and group theory to the interpretation of electronic, vibrational, rotational and magnetic spectroscopy.

CHEM 582 Nanobiotechnology (3-0) 3 / 7 ECTS

This course covers basics of functional nanoparticles for biomedical technologies and the current state-of-the-art.

CHEM 583 Nanophotonics (3-0) 3 / 7 ECTS

This course covers foundations of nanophotonics, theory and applications along with growth and characterization of nanoscale photonic materials.

CHEM 584 Nanoscience and Nanotechnology (3-0) 3 / 7 ECTS

This course will cover the fundamentals of nanoscience and nanotechnology providing exemplary nanoscale materials and applications.

CHEM 587 Single Molecule Chemistry and Biophysics (3-0) 3 / 7 ECTS

This course provides information for the need of single molecule detection and discussion of vast array of single-molecule techniques with landmark examples in molecular biology and chemistry.

Mathematics

MATH 516 Complex Analysis (3-0)3 ECTS 8

Analytic functions. Cauchy-Riemann equations. Harmonic functions. Elementary functions: the exponential function, trigonometric functions, hyperbolic functions. The logarithmic function and its branches. Contour Integrals and Cauchy’s theorem. Cauchy integral formula. Liouville’s theorem and the fundamental theorem of algebra. Maximum moduli of functions. Incompressible and irrotational flow. Complex potential. Laurent’s series and classification of singularities. Sources and vortices as singular points of potential flow. Calculus of residues. Conformal mappings. Fractional linear transformations. Applications of conformal mappings.

Laplace’s equation. Electrostatic potential. Elements of elliptic functions. Analytic continuation and elementary Riemann surfaces.

MATH 531 Numerical Solution of ODE (3-0)3 ECTS 8

Initial-value problems: Runge-Kutta, extrapolation and multistep methods. Stable methods for stiff problems. Boundary-value problems: Shooting and multiple shooting. Difference schemes, collocation. Analysis. Conditioning of boundary value problems. Consistency, stability and convergence for both initial and boundary value problems. Fourier transform tecniques. Fourier analysis, Fourier spectral methods. Geometric integrators. Lie group methods, symplectic methods, Magnus series method.

MATH 533 Ordinary Differential Equations (3-0)3 ECTS 8
This course develops techniques for solving ordinary differential equations. Topics covered include: introduction to First-Order Linear Differential Equations; Second-Order Differential Equations, existence and uniqueness theory for first order equations, power series solutions, nonlinear systems of equations and stability theory, perturbation methods, asymptotic analysis, confluent hyper geometric functions. Mathieu functions. Hill’s equation.

MATH 534 Partial Differential Equations (3-0)3 ECTS 8
General theory of partial differential equations; first order equations; classification of second order equations; theory and methods of solution of elliptic, parabolic, and hyperbolic types of equations; maximum principles; Green’s functions; potential theory; and miscellaneous special topics.

MATH 569 Basic Quantum Computation and Quantum Information (3-0)3 ECTS 7

After providing the necessary background material in classical computation and quantum mechanics, the basic principles will be developed and the main results of quantum computation and information will be discussed.

Introduction to Classical Computation: The Turing machine. The circuit model of computation. Computational complexity. Energy and information. Reversible computation.

Introduction to Quantum Mechanics:  The Stern-Gerlach experiment. Young’s double-split experiment. Linear vector spaces. The postulates of quantum mechanics. The EPR paradox and Bell’s inequalities.

Quantum Computation: 1. The qubit. The Bloch sphere. Measuring the state of a qubit. 2. The circuit model of quantum computation. 3. Single-qubit gates. Rotation of the Bloch sphere. 4. Controlled gates and entanglement generation. The Bell basis. 5. Universal quantum gates 6. Unitary errors 7. Function evaluation 8. The quantum adder. 9. Deutsch’s algorithm 10. Quantum search. 11. The quantum Fourier transform. 12. Quantum phase estimation 13. Period finding and Shor’s algorithm 14. Quantum computation of dynamical systems 15. Quantum simulation of the Schrodinger equation.

Quantum Communication: The no-cloning theorem. Faster-than-light transmission of information. Quantum teleportation.

Electrical & Electronics Engineering

EE 510 Photonics (3-0) 3 ECTS 9

Photonics is a rapidly developing technology with applications in communications, medicine, computing, environmental studies, basic science, and many other fields. The course begins with the photon theory of light and an investigation of the interaction of light with matter emphasizing on polarization properties and statistical aspects. Based on this interaction, the processes of spontaneous emission, absorption, and stimulated emission are treated. This leads to the development of laser systems based on the resonator optics.

EE 511 Introduction to Optical Fiber Communications (3-0) 3 ECTS 9                         

Optical propagation in fibers, attenuation, scattering, dispersion, polarization and non-linear phenomena in transmission. Optical sources and optical detectors. Coupling of sources and detectors to optical fibers, splicing and optical connectors. Non-coherent receivers and their performance, non-coherent optical fiber communication systems.

EE 512 Advanced Optical Fiber Concepts (3-0) 3 ECTS 9

Coherent optical fiber communication systems with heterodyne and homodyne demodulation. Optical fiber amplifiers, frequency division multiplexing and time division multiplexing. Wavelength Division multiplexing systems. Pulse propagation and compression. Solution.

EE 513 Optical Fiber Sensors (3-0) 3 ECTS 9

Fiber optic sensor components: sources, photo detectors, couplers, connectors and splices; Light wave in fiber optic sensors. Interferometric fiber optic sensors, Phase modulated fiber optic sensors; Intensity modulated fiber optic sensors, Fiber optic sensor arrays and distributed sensing, Fiber optic telemetry systems.

EE 515 Optoelectronics (3-0) 3 ECTS 9

Review of electromagnetic theory relevant to optoelectronics. Propagation of rays, Spherical waves and Gaussian beams. Optical resonators. Modulation and detection of optical radiation. Noise in optical detection and generation. Interaction of light and sound. Fiber optics applications.

EE 516 Fourier Optics (3-0) 3 ECTS 9

Application of Fourier theory to the analysis and synthesis of optical imaging and optical data processing systems. Propagation and diffraction of light. Fresnel and Fraunhofer approximations. Fourier transforming properties of lenses. Image formation with coherent and incoherent light. Transfer function of imaging systems. Optical data processing and holography.

EE 521 Advanced Electromagnetic Theory I (3-0)3 / 9 ECTS

Fundamental concepts and theorems. Plane, cylindrical and spherical waves. Plane waves in different medium. Vector and scalar potentials. Transmission lines, waveguides and resonant cavities. Radiating systems. Integral equation formulation of electromagnetic scattering. Periodic structures. Perturbation and variational techniques.

EE 523 Antenna Theory (3-0)3 / 9 ECTS

Fundamentals of electromagnetic radiation and antennas. The plane wave spectrum representation. Wire, slot horn, microstrip and reflector type antennas with emphasis on their applications in various frequency bands. Array analysis and synthesis techniques. Special types of antennas and polarizers.

EE 527 Microwave Measurement Techniques (3-0)3 / 9 ECTS

Signal generators: classification, components and typical block diagramms, output spectra; Power measurement: measuring heads, measurement of modulated and pulsed signals, error sources; Frequency measurement: mechanical frequency- and wavelength-meters, electronical frequency counters; Spectrum analyser: bandwidth, resolution, structure of spectrum analysers, measuring dynamic; Phase noise measurement: definition of phase noise, quantitative description, spectral power density, direct method, phase-detector method, frequency-demodulator-method, phase noise of pulsed signals; Network analyser: principle; components, error correction, calibration, scalar and vector analyser; Antenna measurement: characteristics of an antenna, measurement site, far-field condition, anechoic chamber, impedance, gain, radiation pattern; Automation of measurement systems: IEEE 488, bus system, interface functions, commands and programming languages.

EE 533 Digital Signal Processing (3-0)3 / 9 ECTS

Sampling and quantization of continuous-time signals. Multirate processing of digital signals. Transform analysis of linear time-invariant systems: frequency response of rational system functions, stability and casuality. Digital filter design techniques: FIR and IIR filters. Effects of finite register length. Properties of windowing and short-time Fourier Transform analysis. Introduction to time-frequency representations. Computation of DFT, FFT techniques. DSP application project.

EE 545 Image Processing (3-0)3 / 9 ECTS

Properties and analysis tools for multidimensional signal and systems. Image perception and human visual systems. Stochastic models for image representation. Transform techniques and image data compression. Analysis of video images, motion estimation. Image analysis and computer vision. Image reconstruction from projections.

EE 548 Medical Imaging Systems and Applications (3-0)3 / 9 ECTS

Medical imaging technology, systems, and modalities. Projection radiography: X-Ray systems, digital radiography. Computed tomography (CT): Principles, reconstruction methods, hardware. Magnetic resonance imaging (MRI): Mathematics, spin physics, NMR spectroscopy, fourier transforms, imaging principles. Ultrasound (US): Mathematical principles, echo equation, impulse response, diffraction, lateral and depth resolution, phased array systems, noise removal. Nuclear Medicine: Positron emission tomography (PET), single photon emission computed tomography (SPECT), imaging methods, resolution, 3-D imaging. Medical image storage, archiving and communication systems and formats: PACS, DICOM, TIFF. Image processing applications on medical images: Enhancement, segmentation, registration, compression, etc.

EE 549 Biomedical Image Analysis (3-0)3 / 9 ECTS

Bioimaging in histopathology. Digitized histologic slides: sectioning of tissue samples, immunohistochemical staining, image acquisition. Preprocessing of histology image data. Tissue segmentation. Region segmentation. Segmentation and morphological characterization of cell nuclei. Abnormality detection via pattern classification. Analysis of three-dimensional radiological sequences. Format conversion and preprocessing. Co-registration and lesion detection. Computational anatomy via deformable registration. Comparative group studies: statistical parametric mapping, high-dimensional pattern recognition. Computational anatomy in four dimensional sequences.

EE 562 Telecommunication Circuits (3-0)3 / 9 ECTS

Small and large signal high frequency amplifier design. High frequency oscillators. Noise considerations in Radio Frequency (RF) amplifiers. RF amplifiers. Phased-Locked Loops. Modulators and Demodulators.

Materials Science & Engineering

MSE 509 Atomistic Simulation of Materials – I (3-0)3 / 7 ECTS

In this course, the students will be introduced with the basic concepts in modeling and simulation of materials; and they will make a fast introduction to the applications of density functional theory, which is one of the leading methods in quantum mechanical modeling of materials. Approximately half of the lectures will be reserved for hands-on tutorials.

MSE 510 Scanning Probe and Electron Microscopy (3-0)3 / 7 ECTS

General aspects of electron optics, Electron beam generation, Electron–specimen interactions, Scanning electron microscopy, Transmission electron microscopy, transmission electron microscopy, Field ion microscopy, probe techniques, tunneling microscopy, Atomic force microscopy, Other scanning probe techniques.

MSE 512 Solid State Physics (3-0)3 / 7 ECTS

Basics of quantum mechanics, crystal structures, bonding in solids, Fourier analysis of periodic functions, reciprocal lattice and crystal diffraction, lattice vibrations, phonon heat capacity,   free and non interacting electrons, electrons in periodic potential, semiconductors.

MSE 514 Molecular Aspects of Soft Materials (3-0)3 / 7 AKTS

Molecules and Molecular Compounds, Single molecules, Macromolecules, Supramolecules, Self-assembly.

MSE 515 Quantum Mechanics of Materials Science and Engineering (3-0)3 / 7 ECTS

Background for Quantum Mechanics, photoelectric effect, and de Broglie waves, The Bohr model and Electron diffraction, Probability and uncertainty, wave functions and the schrödinger wave equation, potential wells; potential barriers and tunnelling, the harmonic oscillator, hydrogen atom, zeeman effect, electron spin, m any electron atoms and the exclusion principle, X-ray spectra

MSE 516 Nanomaterials and Surface Engineering (3-0)3 / 7 ECTS

“Nanomaterials,” is an interdisciplinary introduction to processing, structure, and properties of materials at the nanometer length scale. The course will cover recent breakthroughs and assess the impact of this burgeoning field. Specific nanofabrication topics include epitaxy, beam lithographies, self- assembly, biocatalytic synthesis, atom optics, and scanning probe lithography. The unique size- dependent properties (mechanical, thermal, chemical, optical, electronic, and magnetic) that result from nanoscale structure will be explored in the context of technological applications including computation, magnetic storage, sensors, and actuators.

MSE 517 Spectroscopic Methods of Materials Characterization (3-0)3 / 7 ECTS

Atomic structure and bonding in solids. Crystal structures of materials. Imperfections in solids. Diffusion. Mechanical Properties of Metals. Testing of mechanical properties. Dislocations and strengthening mechanisms. Failure. Phase diagrams. Phase transformations, development of microstructure and alteration of mechanical properties.

MSE 519 Atomistic Simulation of Materials – II (3-0)3 / 7 ECTS

In this course, the students will be introduced with the concepts in modeling and simulation of materials. Computation of elastic, vibrational, thermal, optical and magnetic properties of materials will be reviewed using state-of-the-art tools. Approximately half of the lecture hours will be reserved for computations.