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Descriptions of old S-114 Courses

List of Courses

List of new courses


S-114.100 Computational Science (3 cr) L

27+27 (2+2) autumn
Teacher: Dr.Tech. Laura Juvonen
Contents: Introduction to numerical mathematics and modeling. Numerical interpolation, curve fitting, integration and optimization. Data fitting and filtering. Solving systems of linear equations. Basics of the Monte Carlo and molecular dynamics methods. Computer exercises.
Requirements: Computer exercises (50%) and final exam (50%).
Litterature: Lecture notes (main material). Numerical mathematics and computing, 4th edition, W. Cheney and D. Kincaid, Brooks/Cole (1999).
Prerequisites: Basic mathematics courses S1-S3. Programming skills (FORTRAN or C recommended).


S-114.101 Cognitive Neuroscience (3 cr)

Autumn 1.pl
Teacher: prof. Iiro Jääskeläinen
Contents: Introduction to central nervous system function; single neuron as the computational unit of the brain, transmitter systems, plasticity, research methods of cognitive neuroscience, brain interfaces, neuroinformatics, and the neural basis of cognition and perception.
Requirements: Exam.
Literature: Cognitive Neuroscience: The Biology of the Mind, 2nd Ed. Gazzaniga MS, Ivry RB, Mangun GR.
Note: This course replaces course S-114.790.


S-114.102 Philosophy of technology (2 cr) L (Connet)

Spring
Teacher: Henri Kynsilehto, FM Jussi Naukkarinen (Tampereen yliopisto)
Contents: Kurssilla määritetään joitakin teknologiaan liittyviä filosofisia ongelmia. Tämän jälkeen tutustutaan muutamaan vaikutusvaltaiseen teknologiaa käsittelevään filosofiseen teoriaan. Lopuksi haetaan mainituista teorioista ratkaisuja teknologianfilosofisiin ongelmiin, ja arvioidaan kriittisesti mainittuja teorioita. Kurssilla käsitellään myös joitakin konkreettisia ajankohtaisia kysymyksiä. Kurssi kuuluu Virtuaaliyliopisto Connetin tarjontaan. Sen järjestää Tampereen yliopisto.
More Information: From courses web page.


S-114.150 Computer Simulation in Engineering and Economics (2-4 cr) LV

autumn & spring
Teacher: prof. Jouko Lampinen, prof. Kimmo Kaski
Contents: Topics of the course include computer simulation and modelling utilised in engineering and economics.
Requirements: Exam or project work.


S-114.155 Business Game (2 cr) L

4 + 32 (period) spring
Teacher: Dr.Tech, Ph.D KTT Juuso Töyli
Contents: The business game gives participants an overall view of a company's various functions and their interdependencies, and provides an opportunity to practice the management of strategic and operative administration and growth. It enables one's administrative skills to be tested without having to pay dearly for unwanted consequences, and creates a suitable environment for practicing teamwork skills under time pressure.
Course method: Companies, made up of four students, compete against one another in the same game. Decisions are made in computer classrooms during guided game sessions. The attendance of all team members is necessary in all sessions. To complete course requirements, each team must submit a written initial and final report about their particular case.
Literature: A description of the virtual game world is distributed in the opening lecture.
Prerequisites: TU-22.101, TU-22.113, TU-22.130 (or TU-22.132 and TU-22.150), also recommended TU-91.108, TU-22.144. Business game is a unifying course for other studies in industrial management, and therefore it should be taken in the end of one's studies.


S-114.200 Special Course in Computational Engineering I (4 cr) L

40+27 (3+2) autumn
Teacher: prof. Jouko Lampinen
Contents: The course introduces nonlinear statistical modelling methods. Main topics of the course include methods based on neural networks, and their relation to other statistical modelling methods. Objective of the course is to give students both theoretical and practical capabilities to design and analyse neural network models.
Requirements: Exam and project work.
Literature: Collection of articles announced during the course, and C. Bishop, Neural networks for pattern recognition, Oxford Press, 1995
Prerequisites: Principles of Neural Computing Tik-61.161 recommended.


S-114.202 Special Course in Computational Engineering II (2-5 cr) L V

27+27 (2+2) spring
Teacher: prof. Jouko Lampinen
Contents: Course with varying content. Objective of the course is to give licentiate level teaching on a topic related to computational engineering. The course may consist of lectures or seminars.
Requirements: Agreed separately for each years course.
Literature: Book or collection of articles, announced at the beginning of the course.


S-114.204 Modelling of Perception (3 cr) L

27 +27 (2+2) spring
Teachers: prof. Jouko Lampinen, dos. Aapo Hyvärinen, PhD Kaisa Tiippana
Contents: Mechanisms and modelling of human perception are the topics of the course. Visual perception is mainly considered, as well as models based on the probability theory, which allow combination of sensory information and context-dependent expextations into percepts.
Requirements: Exam and practical work.
Literature: Announced at the beginning of the course.
Prerequisites: Basic knowledge of human visual system recommended (e.g. S-114.780 or Tfy-99.247).


S-114.210 Individual Project in Computational Engineering (2 cr) L

0+30 autumn & spring
Teacher: prof. Jouko Lampinen
Contents: The course consists of project works in computational engineering.
Literature: Work instructions


S-114.215 Special Project in Computational Engineering (2-5 cr)

0+30 autumn & spring
Teachers: prof. Kimmo Kaski, prof. Jouko Lampinen, prof. Mikko Sams, prof. Jukka Tulkki
Contents: Project work in computational engineering.
Requirements: Planning and implementation of the project under guidance of the supervisor, final report.
Literature: Work instructions


S-114.220 Research Seminar on Computational Science (2-4 cr) L V

autumn & spring
Teacher: prof. Jouko Lampinen
Contents: Yearly changing subject related to some current research topic in computational engineering.
Requirements: Seminar presentation, report and active participation.


S-114.230 Individual Studies on Computational Engineering (1-6 cr) L

Teacher: prof. Jouko Lampinen, prof. Kimmo Kaski, Dr.Tech. Jukka Heikkonen, Ph.D. Antti Kuronen
Contents: The topic and its depth shall be negotiated with one of the teachers.
Additional: Replaced by S-114.4230


S-114.240 Seminar on Computational Engineering (2 cr) V

27 + 0 (2 + 0) spring
Teacher: dos Mika Ala-Korpela
Contents: The objective of the seminar is to give exercise in preparing and presenting a seminar speech, and giving criticism of the presentations. Topics of the seminar are announced at the begining of the course.
Requirements: Seminar presentation and written report. No exam.


S-114.245 Laboratory Seminar on Computational Engineering (1-2 cr) LV

autumn & spring
Teacher: prof. Jouko Lampinen, prof. Jukka Tulkki, prof. Mikko Sams, prof. Kimmo Kaski
Contents: The seminar is concerned with research topics related to the research conducted in Laboratory of Computational Engineering. The course is intended mainly to graduate students and researchers of the laboratory.
Requirements: Active participation (1 cr) and presenting a seminar speech (1 cr).


S-114.250 Special Topics in Computational Science (4 cr) L

40+27 (3+2) spring
Teacher: Ph.D. Mikko Karttunen
Contents: The aim of the course is to provide the student with an understanding of the advantages and limitations of various computer simulation methods commonly used in physics and engineering.
Requirements: Homework problems, project work.
Literature: D.W.Heermann: Computer Simulation Methods in Theoretical Physics, K.Binder, D.W.Heermann: Monte Carlo Simulation in Statistical Physics, D.Frenkel, B.Smit: Understanding Molecular Simulation: From Algorithms to Applications, A.Kersch, W.J. Mokoroff: Transport Simulation in Microelectronics, Springer-Verlag 1995.
Prerequisites: Basic statistical physics.


S-114.260 Molecular Modeling (4-6 cr) L

autumn or spring
Teacher: Ph.D. Mikko Karttunen
Contents: The emphasis of this course is on learning the methods and underlying concepts of modeling of biomolecular systems and processes, for example lipid membranes, vesicles, DNA and proteins. The relation between theory, experiments and simulations will be discussed in detail.
Requirements: Lectures, exercises and exam (4 cr), or lectures, exercises, exam and project work (6 cr).
Literature: Andrew R. Leach, Molecular Modeling: Principles and Applications, and lecture notes.
Prerequisites: S-114.250 Special topics in computational science or a solid working knowledge of the most common computer simulation methods used in (bio)molecular modeling, e.g. Molecular Dynamics and Monte Carlo. Basic statistical mechanics and thermodynamics. A working knowledge of a programming language, e.g., C or Fortran77/90.


S-114.270 Computational Cell Biology (3-6 cr) L

autumn or spring (not lectured 2003-2004)
Teacher: Ph.D. Mikko Karttunen
Contents: The emphasis of this course is on learning how to analyze and model processes taking places at cellular level. Topics include molecular motors, ion pumps, intercellular communication, and various cell models. The relation between theory, experiments and simulations will be discussed in detail.
Literature: C.P. Fall, E.S. Marland, J.M. Wagner, J.J. Tyson: Computational Cell Biology, and lecture notes.
Prerequisites: Mathematics I-III and S-114.100 Computational Science recommended.


S-114.300 Topical Lectures on Information Theory and Modeling (2 cr) L

8+27
Teacher: prof. Jorma Rissanen, IBM Research Division
Contents: The course is aimed, first, at providing a brief but self-containing account of the basic notions in information theory. Then, modern theory of coding is discussed with special attention to universal coding. This is of fundamental interest not only to data compression but also to modeling and statistical inference in general. Finally, the link of these ideas with the theories of Kolmogorov and stochastic complexities is discussed.
Literature: To be announced.
Requirements: Attendance in the lectures, excercises. The dates and schedule of the course will be announced later.


S-114.310 Introduction to Modelling and Information Theory (2 cr) L

18+6 (3+1) autumn
Teacher: M.Sc. Tommi Nykopp
Contents: The objective of this course is to give understanding about the basic priciples of modeling, emphasizing on statistical modeling. Also information theory and its applications in statistical modeling are discussed. Practical solutions are given to model class selection, model complexity and parameter selection.
Requirements: Exam and project work.
Literature: T.M Cover and J.A. Thomas: Elements of Information Theory. Y Sakamoto, M. Ishiguro and G. Kitagawa: Akaike Information Criterion Statistics, J. Rissanen: Stochastical Complexity in Statistical Inquiry, and other literature announced.
Prerequisites: Basics of statistics and probability calculus.


S-114.325 Physics III (ES) (2 cr)

27+27 (2+2) autumn
Teacher: prof. Jukka Tulkki
Contents: Klassisen tilastollisen mekaniikan ja termodynamiikan perusteet. Kineettisen kaasuteorian alkeita. Kvanttistatistiikan perusteet.
Requirements: Välikokeet ja tentti.


S-114.326 Physics IV (ES) (3 cr)

27+27 (2+2) spring
Teacher: prof. Jukka Tulkki
Contents: Atomi- molekyyli- ja kiinteän aineen fysiikan perusteet.
Requirements: Välikokeet ja tentti.


S-114.401 Semiconductor Quantum Structures (4 cr) L

27+27 (2+2) spring
Teacher: prof. Jukka Tulkki, N.N.
Contents: The course deals with electronic and optical properties of semiconductors and their heterostructures. The goal of the course is to provide knowledge of basic physical properties needed for understanding the working principles of electronic and photonic devices.
Requirements: Exam, exercises and project work.


S-114.402 Physics of Optical Communications Networks (3 cr) L

26+6 autumn (not lectured in 2004-2005)
Teacher: N.N.
Contents: The requirements that WDM and future all-optical networks set for technology and components. The limits and potential given by physics to the development of optical communications networks. All-optical networks. Optical nonlinearity in fibers and switches. Photonic crystals and other novel materials. Ultrafast switching and routing. Optical processing.
Requirements: Examination, or mid-term and end-term examinations.
Literature: T.E. Stern and K. Bala: Multiwavelength Optical Networks - A Layered Approach, Addison-Wesley 1999; R. Ramaswami and K.N. Sivarajan: Optical Networks - A Practical Perspective, Morgan Kaufmann Publishers 1998; G.P. Agrawal: Nonlinear Fiber Optics, Academic Press 1995.
Prerequisites: (recommended) S-108.199 or S-38.164.


S-114.425 Physics III (Sf) (4 cr)

27+27 (4+2) autumn
Teacher: prof. Jukka Tulkki
Contents: Kineettisen teorian, klassisen tilastollisen fysiikan, termodynamiikan ja kvanttistatiikan perusteet, faasimuutokset, fluktuaatiot, kohina sekä entropian käsite tilastollisessa fysiikassa ja informaatioteoriassa.
Requirements: Välikokeet ja tentti.
Kurssi S-114.325 voidaan täydentää kurssiksi S-114.425 erillisellä kirjallisella kuulustelulla.


S-114.426 Physics IV (Sf) (4 cr)

27+27 (4+2) spring
Teacher: prof. Jukka Tulkki
Contents: Atomi- molekyyli- ja kiinteän aineen fysiikan perusteet. Johdatus kvanttimekaniikan formaaliin teoriaan ja kiinteän aineen elektronivyömalleihin.
Requirements: Välikokeet ja tentti.
Kurssi S-114.326 voidaan täydentää kurssiksi S-114.426 erillisellä kirjallisella kuulustelulla.


S-114.500 Basics for Biosystems of the Cell (3 cr) L

42+0 (3+0) autumn s
Teacher: dos. Peter Engelhardt and guest lecturers
Contents: The course gives basic knowledge to biosystems of the cell, concentrating on genomics (genes, DNA and RNA) and proteomics (protein synthesis, structure and interactions).
Requirements: Exam.
Literature: Carl Branden and John Tooze: Introduction to Protein Structure, Garland Publishing, 1999. Other literature announced at the beginning of the course.


S-114.501 Introduction to Bioinformation Technology (2 cr)

autumn + spring
Teacher: N.N.
Contents: General information on HUT and student union, and introduction to Bioinformation technology, study curriculum.
Requirements: Attending to lectures, library exercise, and own study plan for M.Sc. studies.
Literature: Study programme and Department's own study guide.


S-114.502 Seminar on Bioinformation Technology (2 cr) V

autumn and spring (lectured first time 2005-2006)
Teacher: N.N.
Contents: Seminar focuses on timely research topics on Bioinformation technology.
Requirements: Preparation of oral presentation on a given topic. Active participation and acting as opponent.
Language: Finnish and English


S-114.503 Research Seminar on Bioinformation Technology (2 cr) L

autumn and spring (lectured first time 2006-2007)
Teacher: N.N.
Contents: Seminar deals with preparing a research plan and a research report. It is recommended a preliminary excercise befor starting Master's thesis.
Requirements: Active participation, preparation of research plan and giving intermediate reports on Master's thesis.
Language: Finnish and English


S-114.504 Basics for Molecular and Cell Biology (4 cr)

autumn (course will be lectured during 2004-2005, but the course code will be changed and announced later)
Teacher: N.N.
Contents: Opintojaksoon kuuluu luentoja, laboratoriotöitä ja harjoituksia. Opintojakso käsittelee seuraavia aiheita: vesi ja vesiliuokset, proteiinit, kalvot, entsymologia, nukleiinihappojen rakenteet ja pakkautuminen, periytyminen ja DNA:sta proteiiniksi, hiilihydraatit, biomolekyylien tutkimusmenetelmiä, soluorganellit, metabolia ja bioenergetiikka, molekyylimallitus biotieteissä, soluväliaine ja kudokset, biomolekyylien ja solun toiminnan säätely, genomit ja proteomit, biomolekyylitietokannat.
Requirements: Exam
Literature: Announced at the beginning of the course


S-114.510 Computational Systems Biology (3 cr) L

27+13 (2+1) spring
Teacher: Dr.Tech. Jukka Heikkonen
Contents: The course introduces the most important computational methods used in gene mapping, DNA and RNA sequence and microarray analysis (genomics) and protein structure (proteomics).
Requirements: Exam and project work.
Prerequisites: S-114.500 Basics for Biosystems of the Cell
Literature: Joao Setubal: Introduction to Biological Computing. Other literature announced at the beginning of the course.


S-114.520 Special Project in Computational Systems Biology (2-5 cr) L

0+30 autumn & spring
Teacher: Dr.Tech. Jukka Heikkonen, dos. Peter Engelhardt, prof. Kimmo Kaski
Contents: The course contains a special project related to computational systems biology.
Literature: Work instructions.


S-114.530 Human-Machine Interaction (2 cr) L

28 + 0 (4 + 0) autumn
Teacher: Mika Ala-Korpela, docent, Ph.D.
Contents: Structure, function and interaction of living organisms and machines, human anatomy, physiology and nervous system, human and machine intelligence, implants and artificial organs, basics of systems biology, basics of molecular biotechnology, stem cells and new medical treatments, future user interfaces, robots, learning and intelligent systems in consumer products, new scientific achievements - e.g., mind control and artificial eye, discussion about business opportunities, movies, future visions and ethics in the area.
Requirements: Examination and written exercise.
Literature: Lecture material and given articles / references.
Books: Cyborg - the man-machine, Marie O'Mahony and Inhimillinen kone - konemainen ihminen, Eero Hyvönen (ed.).


S-114.601 Introduction to Bayesian Modeling (3 cr)

27+27 (2+2) autumn
Instructors: Dr.Tech. Aki Vehtari, M.Sc. Toni Tamminen
Contents: Bayesian probability theory and Bayesian inference. Bayesian models and their analysis. Computational methods, Markov chain Monte Carlo.
Requirements: Exam and exercises.
Literature: Gelman, Carlin, Stern & Rubin: Bayesian Data Analysis, Second edition and other material announced on lectures.
Prerequisites: First year mathematics are recommended.
Note: This course replaces course S-114.600.


S-114.610 Special course in Bayesian modelling 2-5 cr L

spring
Teacher: Dr.Tech. Aki Vehtari
Contents: Course with varying content. Objective of the course is to give licentiate level teaching on a topic related to computational engineering. The course may consist of lectures or seminars.
Requirements: Agreed separately for each years course.
Literature: Book or collection of articles, announced at the beginning of the course.
Prerequisites: Basics in Bayesian modeling.


S-114.710 Perception and Production of Speech (4 cr) L

24 +30 spring (not lectured in 2004-2005)
Teacher: N.N.
Contents: The course deals with neurocognitive mechanisms of speech, and speech technology. Practicals include laboratory experiments on speech, the results of which will be analysed.
Requirements: Essay, written reports, and exercises.
Literature: Announced at the beginning of the course.
NOTE: This course replaces course S-114.770.


S-114.720 Research Seminar on Communication and Cognition (1-4 cr) L V

autumn or spring
Teacher: N.N.
Contents: Annually changing topic related to current research questions. The course can be shared with other laboratories.
Requirements: Active participation, seminar presentation and possibly practicals.
Literature: To be announced.


S-114.730 Modelling of Communication and Cognition (2 cr) L V

autumn or spring
Teacher: N.N.
Contents: Annually changing topic related to current research questions.
Requirements: Active participation, seminar presentation and possibly practicals.
Literature: To be announced.


S-114.740 Special Course on Communication and Cognition (2 cr) L V

autumn or spring
Teacher: N.N.
Contents: Varying each year and consisting of a current research problem.
Requirements: Active participation and seminar presentation.
Literature: To be announced.


S-114.745 Special Project in Cognitive Science and Technology (2-5 cr)

autumn & spring
Teachers: prof. Mikko Sams, prof. Iiro Jääskeläinen, researcher Kaisa Tiippana, researcher Jyrki Tuomainen, researcher Michael Frydrych
Contents: Special project in the field of cognitive science and technology.
Requirements: To be agreed with the supervising teacher.
Literature: To be agreed with the supervising teacher.


S-114.750 Individual Studies in Communication and Cognition (1-6 cr) LV

Teachers: prof. Mikko Sams, prof. Kimmo Kaski, prof. Jouko Lampinen, prof. Jukka Tulkki, prof. Iiro Jääskeläinen, researcher Jukka Heikkonen, researcher Kaisa Tiippana, researcher Jyrki Tuomainen, researcher Michael Frydrych, prof. Kari-Jouko Räihä
Contents: The contents and extent of individual studies are agreed with the supervising teacher beforehand.


S-114.760 Emotions and Communication (4 cr) L

27+30 spring
Teacher: N.N., N.N.
Contents: The course deals with human emotions, mechanisms of socio-emotional communication, and the utilisation of this information in human-computer interfaces. Practicals include laboratory experiments on emotions and social communication, the results of which will be analysed and discussed.
Requirements: Exam, practicals.
Literature: Oatley, K. and Jenkins, J.M.: Understanding emotions, Cambridge MA: Blackwell Publishers, 1996 or newer, and material announced during the course.


S-114.771 Memory and learning 2 cr L

autumn & spring
Teacher: ma.prof Iiro Jääskeläinen
Requirements: Agreed separately with teacher.
Contents: Human memory systems and the underlying neural mechanisms. Sensory memory, working memory, attention, and long-term memory. Episodic and semantic memory. Disorders of memory. Neural and neural network models of memory.


S-114.772 Mentaaliset ja muut representaatiot (3-5 ov) L (Connet)

autumn
Teacher: Esko Marjomaa
Contents: The course is a multidisciplinary introduction to the theories of representation. It covers philosophical, psychological, and computational aspects of the area. The idea is the following one: In the beginning of the course we have two initial mind maps (see below). A new mind map (or two) will be constructed during the course. In a word, we shall apply problem-based social knowledge construction.
More information: Kurssi kuuluu Virtuaaliyliopisto Connetin tarjontaan. Sen järjestää Joensuun yliopisto.


S-114.780 Perception and Action (4 cr) L

24 +30 autumn
Teacher: PhD Kaisa Tiippana, N.N.
Contents: Mechanisms and phenomena related to visual and auditory perception, multimodality, and motor actions. Basic principles of research methods.
Requirements: Exam, practicals.
Literature: E. Bruce Goldstein (1999): Sensation and Perception (5th or newer edition), New York: Brooks Cole Publishing and material distributed during the course.


S-114.801 Neuroinformatics (3 cr) L

autumn (not lectured 2003-2004)
Teacher: ma.prof. Iiro Jääskeläinen
Contents: Introduction to neuroinformatics. Utilisation of information technology in neurosciences. Statistical modelling in neuroinformatics. Databases and interoperability in neuroinformatics. Applications of neuroinformatics.
Requirements: The course will be given either as a series of lectures or as a seminar.
Literature: Material will be distributed during the course.


S-114.811 Computational neuroscience 3 cr L

autumn & spring
Teacher: ma.prof Iiro Jääskeläinen
Requirements: Agreed separately with teacher.
Contents: On this course, the participants learn how to use computational methods to quantitatively model the activity of neurons, groups of neurons, and neural systems.


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