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List of Publications 2004

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72 references, last updated 2005-11-01

[1]
D.B. Abraham, Ville Mustonen, and A.J. Wood. Equilibrium statistical mechanics of a grain boundary. Physical Review E (Accepted), 2004.

[2]
D.B. Abraham, Ville Mustonen, and A.J. Wood. Exact results for wetting and filling on a triangular lattice. International Journal of Thermophysics, 25(4):1051-1062, 2004.

[3]
D.B. Abraham, Ville Mustonen, and A.J. Wood. Relaxation dynamics of a system with a grain boundary. Physical Review E (accepted), 2004.

[4]
D.B. Abraham, Ville Mustonen, and A.J. Wood. Solid on solid model for an interface crossing a grain boundary. Journal of Physics A: Mathematical and General, 37:L233-L239, 2004.

[5]
D.B. Abraham, Ville Mustonen, and A.J. Wood. Wetting effects at a grain boundary. Physical Review Letters, 93:076101, 2004.

[6]
Tobias Andersen, Bram Bolder, Rolf Würtz, Kaisa Tiippana, and Mikko Sams. Maximum likelihood integration of rapid flashes and beeps. Published as technical reportB39ISBN 951-22-7296-2, Helsinki University of Technology. Laboratory of Computational Engineering, 2004.

[7]
J. A. Åström, J. Timonen, and Mikko Karttunen. Crumpling of a stiff tethered membrane. Phys. Rev. Lett., 93:244301, 2004. (PDF)

[8]
Toni Auranen, Aapo Nummenmaa, Matti S. Hämäläinen, Iiro P. Jääskeläinen, Jouko Lampinen, Aki Vehtari, and Mikko Sams. Full Bayesian analysis of the MEG inverse problem with ell p-norm priors. In 10th Annual Meeting of the Organization for Human Brain Mapping (CD-ROM, WE 128), June 13-17, Budapest, Hungary, 2004.

[9]
Fredrik Boxberg and Jukka Tulkki. Handbook of Nanotechnology, chapter Quantum Dots: Phenomenology, Photonic and Electronic Properties, Modeling and Technology, pages 109-144. SPIE/ASME, 2004.

[10]
Fredrik Boxberg, Roman Tereshonkov, and Jukka Tulkki. The polarization-dependence of the gain in quantum well lasers. In Polarization-dependence of the Gain in Quantum Well Lasers, 2004.

[11]
Sami S. Brandt and Ville Kolehmainen. Motion without correspondence from tomographic projections by bayesian inversion theory. In Proc. IEEE Computer Society Conference on Computer Vision and Pattern Recognition, pages 582-587, Washington D.C., June 2004.

[12]
Sami S. Brandt. On the probabilistic epipolar geometry. In Proc. British Machine Vision Conference, volume 1, pages 107-116, London, UK, September 2004.

[13]
Martin Dobsík and Michael Frydrych. Biomechanically based muscle model for dynamic computer animation. In Proceedings of International Conference on Computer Vision and Graphics 2004, Warsaw, Poland, 22-24 September 2004.

[14]
L. Dong, J. P. Huang, K. W. Yu, and G. Q. Gu. Dielectric response of graded spherical particles of anisotropic materials. J. Appl. Phys., 95:621-624, 2004.

[15]
Emma Falck, Michael Patra, Mikko Karttunen, Marja T. Hyvonen, and Ilpo Vattulainen. Impact of cholesterol on voids in phospholipid membranes. J. Chem. Phys., 121:12676-12689, 2004. (PDF)

[16]
Emma Falck, Michael Patra, Mikko Karttunen, Marja T. Hyvönen, and Ilpo Vattulainen. Molecular dynamics studies of dppc-cholesterol lipid bilayers: Concept of free-area per molecule. Biophys. J., 86:371A, 2004.

[17]
Emma Falck, Michael Patra, Mikko Karttunen, Marja T. Hyvönen, and Ilpo Vattulainen. Lessons of slicing membranes: Interplay of packing, free area, and lateral diffusion in phospholipid/cholesterol bilayers. Biophys. J., 87:1076-1091, 2004. (PDF)

[18]
A. A. Gurtovenko, Michael Patra, Mikko Karttunen, and Ilpo Vattulainen. Cationic DMPC/DMTAP lipid bilayers: Molecular dynamics study. Biophys. J, 86:3461-3472, 2004. (PDF)

[19]
Jukka Heikkonen and Jari Varjo. Forest change detection applying landsat tm difference features: a comparison of different classifiers in boreal forest conditions. Forest Science, 50(5), 2004. 1-10.

[20]
Jukka Heikkonen, Marianna Hiltunen, Jouni Juujärvi, Tapio Kotiaho, and Raimo Ketola. A new maximum likelihood approach with asymmetric error function for multicomponent mass spectra analysis. European Journal of Mass Spectroscopy, 10(5):573-578, 2004.

[21]
Ji-Ping Huang and K. W. Yu. Many-body dipole-induced dipole model for electrorheological fluids. Chinese Physics, 13:1065-05, 2004.

[22]
J. P. Huang, K. W. Yu, and Mikko Karttunen. Nonlinear alternating current responses of dipolar fluids. Phys. Rev. E, 70:011403, 2004. (PDF)

[23]
Ji-Ping Huang, L. Dong, and Kin Wah Yu. Optical nonlinearity enhancement of graded metal-dielectric composite films. Europhys. Lett., 67:854-858, 2004.

[24]
J.P. Huang, Mikko Karttunen, K. W. Yu, L. Dong, and G. Q. Gu. Electrokinetic behavior of two touching inhomogeneous biological cells and colloidal particles: Effects of multipolar interactions. Phys. Rev. E, 69:051402, 2004.

[25]
T. S. Hudson, S. L. Dudarev, and A. P. Sutton. Confinement of interstitial cluster diffusion by oversized solute atoms. September 2004. Accepted for publication.

[26]
Iaroslav Ispolatov and Mikko Karttunen. Anomalously slow phase transitions in self-gravitating systems. Phys. Rev. E, 70:026102, 2004. (PDF)

[27]
J. Heikkonen J. A. Lehtonen, T. Nykopp and M. Sams. Brain computer interface platform. In A. Schögl G. Pfurtscheller G. R. Müller, Ch. Neuper, editor, Biomedizinische Technik, Proceedings of the 2nd International Brain-Computer Interface Workshop and Training Course 2004, volume 49, pages 67-68, 2004.

[28]
Laura Juvonen. Monte Carlo simulations in the study of semiconductor surfaces. Dissertation for the degree of Doctor of Science in Technology, Helsinki University of Technology. Laboratory of Computational Engineering, 2004. Published as technical report B37, ISBN 951-22-7127-3.

[29]
Juho Kannala and Sami Brandt. A generic camera calibration method for fish-eye lenses. In Proc. 17th International Conference on Pattern Recognition, volume 1, pages 10-13, Cambridge, U.K., August 2004.

[30]
Mikko Karttunen and Ilpo Vattulainen. Biologisten systeemien mallintaminen. Tietoyhteys, 2/2004:20-22, 2004. (PDF)

[31]
Mikko Karttunen, Ilpo Vattulainen, and Ari Lukkarinen. Computer simulation studies in condensed matter physics xvii. Springer Verlag, Berlin, 2004. To appear. (PDF)

[32]
Mikko Karttunen, Ilpo Vattulainen, and Ari Lukkarinen. Novel methods in soft matter simulations. Springer Verlag, 2004. (PDF)

[33]
Pasi Kaukinen, Vibhor Kumar, Kirsi Tulimäki, Peter Engelhardt, Antti Vaheri, and Alexander Plyusnin. Oligomerization of hantavirus n protein: C-terminal - helices interact to form a shared hydrophobic space. J. Virol., (78):13669-13677, 2004.

[34]
T. Koponen, A. Huttunen, and P. Törmä. Conditions for waveguide decoupling in square-lattice photonic crystals. Journal of Applied Physics, 96:4039, 2004.

[35]
Timo Kostiainen and Jouko Lampinen. Efficient proposal distributions for MCMC image segmentation. In IEEE International Conference on Image Processing, Singapore, October 2004.

[36]
Timo Kostiainen and Jouko Lampinen. Probabilistic image segmentation for low-level map building in robot navigation. In Workshop on Processing Sensory Information for Proactive Systems (PSIPS 2004), Oulu, Finland, June 2004.

[37]
Vibhor Kumar, Jukka Heikkonen, Peter Engelhardt, and Kimmo Kaski. Robust filtering and particle picking in micrograph images towards 3D reconstruction of purified proteins with cryo-electron microscopy. Journal of Structural Biology, 145(1-2):41-51, 2004.

[38]
J. A. Lehtonen I. Tarnanen H. Alaranta L. Kauhanen, P. Rantanen and M. Sams. Sensorimotor cortical activity of tetraplegics during attempted finger movements. In A. Schögl G. Pfurtscheller G. R. Müller, Ch. Neuper, editor, Biomedisinische Tecknik, Proceedings of the 2nd International Brain-Computer Interface Workshop and Training Course 2004, volume 49, pages 59-60, 2004.

[39]
B. W. Lee, R. Faller, A. K. Sum, I. Vattulainen, M. Patra, and M. Karttunen. Structural effects of small molecules on phospholipid bilayers investigated by molecular simulations. Fluid Phase Equilibria, 225:63-68, 2004. (PDF)

[40]
Lasse Lensu, Michael Frydrych, Jussi Parkkinen, Sinikka Parkinen, and Timo Jaaskelainen. Photoelectric properties of bacteriorhodopsin analogs for color-sensitive optoelectronic devices. Optical Materials, 27:57-62, 2004.

[41]
T. Leppänen, M. Karttunen, R. A. Barrio, and K. Kaski. Morphological transitions and bistability in turing systems. Phys. Rev. E, 70:066202, 2004. (PDF)

[42]
Teemu Leppänen, Mikko Karttunen, Kimmo Kaski, and Rafael A. Barrio. Turing systems as models of complex pattern formation. Braz. J. Phys., 34:368-372, 2004.

[43]
Teemu Leppänen. Computational Studies of Pattern Formation in Turing Systems. Dissertation for the degree of Doctor of Science in Technology, Helsinki University of Technology. Laboratory of Computational Engineering, 2004. Published as technical report B40, ISBN 951-22-7395-0.

[44]
D. R. Mason, R. E. Rudd, and A. P. Sutton. Novel methods in soft matter simulations. In Lecture Notes in Physics. Springer Verlag, Berlin, 2004. To appear.

[Möttönen et al., 2004]
Riikka Möttönen, Gemma A. Calvert, Iiro P. Jääskeläinen, Paul M. Matthews, Thomas Thesen, Jyrki Tuomainen, and Mikko Sams. Perception of acoustically identical sounds as speech or non-speech modifies activity in left posterior superior temporal sulcus. Published as technical report B42ISBN 951-22-7412-4, Helsinki University of Technology. Laboratory of Computational Engineering, 2004.

[46]
Riikka Möttönen. Cortical mechanism of seeing and hearing speech. Dissertation for the degree of Doctor of Science in Technology, Helsinki University of Technology. Laboratory of Computational Science and Engineering, 2004. Published as technical report B43, ISBN 951-22-7426-4.

[47]
M.Patriarca, A. Chakraborti, and G. Iori. Simple models of economy-driven evolving social networks. presented at the conference Vehulst 200 on Chaos 2004 September 16-18, Bruxelles, Belgium, 2004.

[48]
Teemu Murtola, Emma Falck, Michael Patra, Mikko Karttunen, and Ilpo Vattulainen. Coarse-grained model for phospholipid/cholesterol bilayer. J. Chem. Phys., 121:9156-9165, 2004. (PDF)

[49]
Aapo Nummenmaa, Toni Auranen, Matti S. Hämäläinen, Iiro P. Jääskeläinen, Jouko Lampinen, Mikko Sams, and Aki Vehtari. A hierarchical Bayesian approach in distributed MEG source modelling. In 10th Annual Meeting of the Organization for Human Brain Mapping (CD-ROM, WE 265), June 13-17, Budapest, Hungary, 2004.

[50]
Janne Ojanen, Timo Miettinen, Jukka Heikkonen, and Jorma Rissanen. Robust denoising of electrophoresis and mass spectrometry signals with minimum description length principle. FEBS Letters, 570(1):107-113, July 2004.

[51]
J-P Onnela, K. Kaski, and J. Kertesz. Clustering and information in correlation based financial networks. European Physical Journal B, 38:353-362, 2004.

[52]
Michael Patra and Mikko Karttunen. Systematic comparison of force fields for microscopic simulations of NaCl in aqueous solutions: Diffusion, free energy of hydration and structural properties. J. Comp. Chem., 25:678-689, 2004. (PDF)

[53]
Michael Patra, Mikko Karttunen, Marja T. Hyvönen, Emma Falck, and Ilpo Vattulainen. Lipid bilayers driven to a wrong lane in molecular dynamics simulations by truncation of long-range electrostatic interactions. J. Phys. Chem. B, 108:4485-4494, 2004.

[54]
M. Patriarca and T. Leppänen. Modelling language competition. Physica A, 338:296, 2004.

[55]
M. Patriarca and Jari Saramäki. Research oriented seminar on complex systems. Spring 2004, Lab of Computational Engineering, Helsinki University of Technology, 2004.

[56]
M. Patriarca, A. Chakraborti, and K. Kaski. Gibb's versus non-gibb's distributions in money dynamics. Physica A, 340:334, 2004.

[57]
M. Patriarca, P. Szelestey, and E. Heinsalu. Brownian model of dissociated dislocations. presented at the 17th Marian Smoluchowski Symposium on Statistical Physics, 2004 September 4-9, Zakopane, Poland, 2004.

[58]
M. Patriarca. Feynman-vernonmodel of amoving thermal environment. presented at the international conference on Frontiers of quantum and mesoscopic thermodynamics, 2004 July 15-18, Prague, Czech Republic, 2004.

[59]
M. Patriarca. Introduction to molecular dynamics. Kääriku Estonian Autumn School of Physics, 2004 October 8-10, Kääriku, Estonia, 2004.

[60]
Maria Sammalkorpi. Molecular Dynamics Simulations of Strained and Defective Carbon Nanotubes. Dissertation for the degree of Doctor of Science in Technology, Helsinki University of Technology. Laboratory of Computational Engineering, 2004. Published as technical report B41, ISBN 951-22-7378-0.

[61]
Jari Saramäki and Kimmo Kaski. Scale-free networks generated by random walkers. Physica A, 341:80-86, 2004.

[62]
Simo Särkkä, Toni Tamminen, Aki Vehtari, and Jouko Lampinen. Probabilistic methods in multiple target tracking - Review and bibliography. Published as technical report B36, ISBN 951-22-6938-4, Helsinki University of Technology. Laboratory of Computational Engineering, 2004. (PDF)

[63]
Simo Särkkä, Aki Vehtari, and Jouko Lampinen. Rao-Blackwellized Monte Carlo data association for multiple target tracking. In Proceedings of the Seventh International Conference on Information Fusion, volume I, pages 583-590, June 2004.

[64]
Simo Särkkä, Aki Vehtari, and Jouko Lampinen. Time series prediction by Kalman smoother with cross validated noise density. In Proc. IJCNN 2004, pages 1653-1658, July 2004.

[65]
M. Sysi-Aho, A. Chakraborti, and K. Kaski. Searching for good strategies in adaptive minority games. The European Physical Review E, 69:036125, 2004.

[66]
P. Szelestey, M. Patriarca, and K. Kaski. Computational study of a dislocation interacting with a stacking fault tetrahedron in nickel. submitted to Modelling Simul. Mater. Sci. Eng., 2004.

[67]
P. Szelestey, M. Patriarca, and K. Kaski. Dissociated dislocations in ni: a computational study. Materials Science and Engineering A, 390(393), 2005.

[68]
T. Tamminen and J. Lampinen. A Bayesian occlusion model for sequential object matching. In A. Hoppe, S. Barman, and T. Ellis, editors, Proc. British Machine Vision Conference 2004, volume 2, pages 547-556, 2004.

[69]
Juuso Töyli, Marko Sysi-Aho, and Kimmo Kaski. Models of asset returns: Changes of pattern from high to low event frequency. Quantitative Finance, 2004. To appear.

[70]
Ilpo Vattulainen and Mikko Karttunen. Modeling of biologically motivated soft matter systems. In M. Rieth and W. Schommers, editors, Handbook of Theoretical and Computational Nanotechnology. American Scientific Publishers, Stevenson Ranch, California, 2004. To appear.

[71]
Aki Vehtari and Jouko Lampinen. Model selection via predictive explanatory power. Published as technical report B38ISBN 951-22-7190-7, Helsinki University of Technology. Laboratory of Computational Engineering, 2004.

[72]
S. von Alfthan, A. Sutton, A. Kuronen, and K. Kaski. Clusters of amorphous si in crystalline si: stability and collapse. In Reijo Rasikangas, editor, Proceeding os the XXXVIII annual conference of the Finnish physical society, page 13, University of Oulu, Finland, 2004.


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