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2004


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A Primer on Kernel Methods

Vert, J., Tsuda, K., Schölkopf, B.

In Kernel Methods in Computational Biology, pages: 35-70, (Editors: B Schölkopf and K Tsuda and JP Vert), MIT Press, Cambridge, MA, USA, 2004 (inbook)

ei

PDF [BibTex]

2004


PDF [BibTex]


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Confidence Sets for Ratios: A Purely Geometric Approach To Fieller’s Theorem

von Luxburg, U., Franz, V.

(133), Max Planck Institute for Biological Cybernetics, 2004 (techreport)

Abstract
We present a simple, geometric method to construct Fieller's exact confidence sets for ratios of jointly normally distributed random variables. Contrary to previous geometric approaches in the literature, our method is valid in the general case where both sample mean and covariance are unknown. Moreover, not only the construction but also its proof are purely geometric and elementary, thus giving intuition into the nature of the confidence sets.

ei

PDF [BibTex]

PDF [BibTex]


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Transductive Inference with Graphs

Zhou, D., Schölkopf, B.

Max Planck Institute for Biological Cybernetics, 2004, See the improved version Regularization on Discrete Spaces. (techreport)

Abstract
We propose a general regularization framework for transductive inference. The given data are thought of as a graph, where the edges encode the pairwise relationships among data. We develop discrete analysis and geometry on graphs, and then naturally adapt the classical regularization in the continuous case to the graph situation. A new and effective algorithm is derived from this general framework, as well as an approach we developed before.

ei

[BibTex]

[BibTex]


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Classification and Feature Extraction in Man and Machine

Graf, AAB.

Biologische Kybernetik, University of Tübingen, Germany, 2004, online publication (phdthesis)

ei

[BibTex]

[BibTex]


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Phenotypic Characterization of Human Chondrocyte Cell Line C-20/A4: A Comparison between Monolayer and Alginate Suspension Culture

Finger, F., Schorle, C., Söder, S., Zien, A., Goldring, M., Aigner, T.

Cells Tissues Organs, 178(2):65-77, 2004 (article)

Abstract
DNA microarray analysis was used to investigate the molecular phenotype of one of the first human chondrocyte cell lines, C-20/A4, derived from juvenile costal chondrocytes by immortalization with origin-defective simian virus 40 large T antigen. Clontech Human Cancer Arrays 1.2 and quantitative PCR were used to examine gene expression profiles of C-20/A4 cells cultured in the presence of serum in monolayer and alginate beads. In monolayer cultures, genes involved in cell proliferation were strongly upregulated compared to those expressed by human adult articular chondrocytes in primary culture. Of the cell cycle-regulated genes, only two, the CDK regulatory subunit and histone H4, were downregulated after culture in alginate beads, consistent with the ability of these cells to proliferate in suspension culture. In contrast, the expression of several genes that are involved in pericellular matrix formation, including MMP-14, COL6A1, fibronectin, biglycan and decorin, was upregulated when the C-20/A4 cells were transferred to suspension culture in alginate. Also, nexin-1, vimentin, and IGFBP-3, which are known to be expressed by primary chondrocytes, were differentially expressed in our study. Consistent with the proliferative phenotype of this cell line, few genes involved in matrix synthesis and turnover were highly expressed in the presence of serum. These results indicate that immortalized chondrocyte cell lines, rather than substituting for primary chondrocytes, may serve as models for extending findings on chondrocyte function not achievable by the use of primary chondrocytes.

ei

[BibTex]

[BibTex]


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Kernel Methods and their Potential Use in Signal Processing

Perez-Cruz, F., Bousquet, O.

IEEE Signal Processing Magazine, (Special issue on Signal Processing for Mining), 2004 (article) Accepted

ei

PostScript [BibTex]

PostScript [BibTex]


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Concentration Inequalities

Boucheron, S., Lugosi, G., Bousquet, O.

In Lecture Notes in Artificial Intelligence 3176, pages: 208-240, (Editors: Bousquet, O., U. von Luxburg and G. Rätsch), Springer, Heidelberg, Germany, 2004 (inbook)

ei

PDF [BibTex]

PDF [BibTex]


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Kernels for graphs

Kashima, H., Tsuda, K., Inokuchi, A.

In pages: 155-170, (Editors: Schoelkopf, B., K. Tsuda and J.P. Vert), MIT Press, Cambridge, MA; USA, 2004 (inbook)

ei

PDF [BibTex]

PDF [BibTex]


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A primer on molecular biology

Zien, A.

In pages: 3-34, (Editors: Schoelkopf, B., K. Tsuda and J. P. Vert), MIT Press, Cambridge, MA, USA, 2004 (inbook)

Abstract
Modern molecular biology provides a rich source of challenging machine learning problems. This tutorial chapter aims to provide the necessary biological background knowledge required to communicate with biologists and to understand and properly formalize a number of most interesting problems in this application domain. The largest part of the chapter (its first section) is devoted to the cell as the basic unit of life. Four aspects of cells are reviewed in sequence: (1) the molecules that cells make use of (above all, proteins, RNA, and DNA); (2) the spatial organization of cells (``compartmentalization''); (3) the way cells produce proteins (``protein expression''); and (4) cellular communication and evolution (of cells and organisms). In the second section, an overview is provided of the most frequent measurement technologies, data types, and data sources. Finally, important open problems in the analysis of these data (bioinformatics challenges) are briefly outlined.

ei

PDF PostScript Web [BibTex]

PDF PostScript Web [BibTex]


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Implicit Wiener series for capturing higher-order interactions in images

Franz, M., Schölkopf, B.

Sensory coding and the natural environment, (Editors: Olshausen, B.A. and M. Lewicki), 2004 (poster)

Abstract
The information about the objects in an image is almost exclusively described by the higher-order interactions of its pixels. The Wiener series is one of the standard methods to systematically characterize these interactions. However, the classical estimation method of the Wiener expansion coefficients via cross-correlation suffers from severe problems that prevent its application to high-dimensional and strongly nonlinear signals such as images. We propose an estimation method based on regression in a reproducing kernel Hilbert space that overcomes these problems using polynomial kernels as known from Support Vector Machines and other kernel-based methods. Numerical experiments show performance advantages in terms of convergence, interpretability and system sizes that can be handled. By the time of the conference, we will be able to present first results on the higher-order structure of natural images.

ei

[BibTex]

[BibTex]


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Classification and Memory Behaviour of Man Revisited by Machine

Graf, A., Wichmann, F., Bülthoff, H., Schölkopf, B.

CSHL Meeting on Computational & Systems Neuroscience (COSYNE), 2004 (poster)

ei

[BibTex]

[BibTex]


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Advanced Statistical Learning Theory

Bousquet, O.

Machine Learning Summer School, 2004 (talk)

ei

PDF [BibTex]

PDF [BibTex]


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E. Coli Inspired Propulsion for Swimming Microrobots

Behkam, Bahareh, Sitti, Metin

pages: 1037–1041, 2004 (article)

Abstract
Medical applications are among the most fascinating areas of microrobotics. For long, scientists have dreamed of miniature smart devices that can travel inside the human body and carry out a host of complex operations such as minimally invasive surgery (MIS), highly localized drug delivery, and screening for diseases that are in their very early stages. Still a distant dream, significant progress in micro and nanotechnology brings us closer to materializing it. For such a miniature device to be injected into the body, it has to be 800 μm or smaller in diameter. Miniature, safe and energy efficient propulsion systems hold the key to maturing this technology but they pose significant challenges. Scaling the macroscale natation mechanisms to micro/nano length scales is unfeasible. It has been estimated that a vibrating-fin driven swimming robot shorter than 6 mm can not overcome the viscous drag forces in water. In this paper, the authors propose a new type of propulsion inspired by the motility mechanism of bacteria with peritrichous flagellation, such as Escherichia coli, Salmonella typhimurium and Serratia marcescens. The perfomance of the propulsive mechanism is estimated by modeling the dynamics of the motion. The motion of the moving organelle is simulated and key parameters such as velocity, distribution of force and power requirments for different configurations of the tail are determined theoretically. In order to validate the theoretical result, a scaled up model of the swimming robot is fabricated and characterized in silicone oil using the Buckingham PI theorem for scaling. The results are compared with the theoretically computed values. These robots are intended to swim in stagnation/low velocity biofluid and reach currently inaccessible areas of the human body for disease inspection and possibly treatment. Potential target regions to use these robots include eyeball cavity, cerebrospinal fluid and the urinary system.

pi

link (url) DOI [BibTex]

link (url) DOI [BibTex]


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E. coli inspired propulsion for swimming microrobots

Behkam, B., Sitti, M.

In ASME 2004 International Mechanical Engineering Congress and Exposition, pages: 1037-1041, 2004 (inproceedings)

pi

Project Page [BibTex]

Project Page [BibTex]


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Dynamic modes of nanoparticle motion during nanoprobe-based manipulation

Tafazzoli, A., Sitti, M.

In Nanotechnology, 2004. 4th IEEE Conference on, pages: 35-37, 2004 (inproceedings)

pi

[BibTex]

[BibTex]


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Modeling and design of biomimetic adhesives inspired by gecko foot-hairs

Shah, G. J., Sitti, M.

In Robotics and Biomimetics, 2004. ROBIO 2004. IEEE International Conference on, pages: 873-878, 2004 (inproceedings)

pi

Project Page [BibTex]

Project Page [BibTex]


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Discovering optimal imitation strategies

Billard, A., Epars, Y., Calinon, S., Cheng, G., Schaal, S.

Robotics and Autonomous Systems, 47(2-3):68-77, 2004, clmc (article)

Abstract
This paper develops a general policy for learning relevant features of an imitation task. We restrict our study to imitation of manipulative tasks or of gestures. The imitation process is modeled as a hierarchical optimization system, which minimizes the discrepancy between two multi-dimensional datasets. To classify across manipulation strategies, we apply a probabilistic analysis to data in Cartesian and joint spaces. We determine a general metric that optimizes the policy of task reproduction, following strategy determination. The model successfully discovers strategies in six different imitative tasks and controls task reproduction by a full body humanoid robot.

am

[BibTex]

[BibTex]


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Learning Composite Adaptive Control for a Class of Nonlinear Systems

Nakanishi, J., Farrell, J. A., Schaal, S.

In IEEE International Conference on Robotics and Automation, pages: 2647-2652, New Orleans, LA, USA, April 2004, 2004, clmc (inproceedings)

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link (url) [BibTex]

link (url) [BibTex]


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Rhythmic movement is not discrete

Schaal, S., Sternad, D., Osu, R., Kawato, M.

Nature Neuroscience, 7(10):1137-1144, 2004, clmc (article)

Abstract
Rhythmic movements, like walking, chewing, or scratching, are phylogenetically old mo-tor behaviors found in many organisms, ranging from insects to primates. In contrast, discrete movements, like reaching, grasping, or kicking, are behaviors that have reached sophistication primarily in younger species, particularly in primates. Neurophysiological and computational research on arm motor control has focused almost exclusively on dis-crete movements, essentially assuming similar neural circuitry for rhythmic tasks. In con-trast, many behavioral studies focused on rhythmic models, subsuming discrete move-ment as a special case. Here, using a human functional neuroimaging experiment, we show that in addition to areas activated in rhythmic movement, discrete movement in-volves several higher cortical planning areas, despite both movement conditions were confined to the same single wrist joint. These results provide the first neuroscientific evi-dence that rhythmic arm movement cannot be part of a more general discrete movement system, and may require separate neurophysiological and theoretical treatment.

am

link (url) [BibTex]

link (url) [BibTex]


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Investigation of oxide layers in tunnel junctions

Amaladass, E. P.

University of Stuttgart, Stuttgart, 2004 (mastersthesis)

mms

[BibTex]

[BibTex]


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Uncompensated spins in a micro-patterned CoFeB / MnIr exchange bias system

Eimüller, T., Kato, T., Mizuno, T., Tsunashima, S., Quitmann, C., Ramsvik, T., Iwata, S., Schütz, G.

{Applied Physics Letters}, 85(12):2310-2312, 2004 (article)

mms

[BibTex]

[BibTex]


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Comparative study of magnetization reversal in isolated and strayfield coupled microcontacts

Meier, G., Eiselt, R., Bolte, M., Barthelmess, M., Eimüller, T., Fischer, P.

{Applied Physics Letters}, 85(7):1193-1195, 2004 (article)

mms

[BibTex]

[BibTex]


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Grain boundary faceting close to the \Sigma3 coincidence misorientation in copper

Straumal, B., Polyakov, S., Bischoff, E., Mittemeijer, E.

{Zeitschrift f\"ur Metallkunde}, 95, pages: 939-944, 2004 (article)

mms

[BibTex]

[BibTex]


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Untersuchung der Desorptionskinetik von Metallhydriden in Bezug auf technische Anwendungen

von Zeppelin, F.

Universität Stuttgart, Stuttgart, 2004 (phdthesis)

mms

[BibTex]

[BibTex]


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Photoelectron spectroscopy on Pt atoms and clusters deposited on C(0001)

Fauth, K., Schneider, N., He\ssler, M., Schütz, G.

{European Physical Journal D}, 29(1):57-61, 2004 (article)

mms

[BibTex]

[BibTex]


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Enhanced flux line pinning by substrate induced defects in YBCO thin films

Albrecht, J., Leonhardt, S., Habermeier, H.-U., Brück, S., Spolenak, R., Kronmüller, H.

{Physica C}, 404, pages: 18-21, 2004 (article)

mms

[BibTex]

[BibTex]


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Amorphous carbon nanotubes produced by a temperature controlled DC arc discharge

Liu, Y., Song, X., Zhao, T., Zhu, J., Hirscher, M., Phillipp, F.

{Carbon}, 42(8-9):1852-1855, 2004 (article)

mms

[BibTex]

[BibTex]


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Initial oxidation of quasicrystals - an investigation by high-resolution RBS and ERDA

Plachke, D., Khellaf, A., Kurth, M., Szökefalvy-Nagy, A., Carstanjen, H. D.

{Journal of Non-Crystalline Solids}, 334-335, pages: 524-531, 2004 (article)

mms

[BibTex]

[BibTex]


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High-speed dynamics of magnetization processes in hard magnetic particles and thin platelets

Goll, D., Kronmüller, H.

In Proceedings of the 18th International Workshop on Rare-Earth Magnets and their Applications, pages: 465-469, Laboratoire de Cristallographie/Laboratoire Louis Neel, CNRS, Grenoble, 2004 (inproceedings)

mms

[BibTex]

[BibTex]


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First-principles modeling of magnetism and phase equilibria in binary alloys

Diaz-Ortiz, A., Drautz, R., Fähnle, M., Dosch, H.

{Journal of Alloys and Compounds}, 369, pages: 27-32, 2004 (article)

mms

[BibTex]

[BibTex]


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Nanoscale Materials for Energy Storage
{Materials Science \& Engineering B}, 108, pages: 292, Elsevier, 2004 (misc)

mms

[BibTex]

[BibTex]


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Critical thicknesses of domain formations in cubic particles and thin films

Kronmüller, H., Goll, D., Hertel, R., Schütz, G.

{Physica B}, 343(1-4):229-235, 2004 (article)

mms

[BibTex]

[BibTex]


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Operating system support for interface virtualisation of reconfigurable coprocessors

Vuletic, M., Righetti, L., Pozzi, L., Ienne, P.

In In Proceedings of the Design, Automation and Test in Europe Conference and Exhibition, pages: 748-749, IEEE, Paris, France, 2004 (inproceedings)

Abstract
Reconfigurable systems-on-chip (SoC) consist of large field programmable gate arrays (FPGAs) and standard processors. The reconfigurable logic can be used for application-specific coprocessors to speedup execution of applications. The widespread use is limited by the complexity of interfacing software applications with coprocessors. We present a virtualization layer that lowers the interfacing complexity and improves the portability. The layer shifts the burden of moving data between processor and coprocessor from the programmer to the operating system (OS). A reconfigurable SoC running Linux is used to prove the concept.

mg

link (url) DOI [BibTex]

link (url) DOI [BibTex]


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Augmented reality user interface for nanomanipulation using atomic force microscopes

Vogl, W., Sitti, M., Ehrenstrasser, M., Zäh, M.

In Proc. of Eurohaptics, pages: 413-416, 2004 (inproceedings)

pi

[BibTex]

[BibTex]


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WaalBots for Space applications

Menon, C., Murphy, M., Angrilli, F., Sitti, M.

In 55th IAC Conference, Vancouver, Canada, 2004 (inproceedings)

pi

[BibTex]

[BibTex]


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Learning from demonstration and adaptation of biped locomotion

Nakanishi, J., Morimoto, J., Endo, G., Cheng, G., Schaal, S., Kawato, M.

Robotics and Autonomous Systems, 47(2-3):79-91, 2004, clmc (article)

Abstract
In this paper, we introduce a framework for learning biped locomotion using dynamical movement primitives based on non-linear oscillators. Our ultimate goal is to establish a design principle of a controller in order to achieve natural human-like locomotion. We suggest dynamical movement primitives as a central pattern generator (CPG) of a biped robot, an approach we have previously proposed for learning and encoding complex human movements. Demonstrated trajectories are learned through movement primitives by locally weighted regression, and the frequency of the learned trajectories is adjusted automatically by a novel frequency adaptation algorithmbased on phase resetting and entrainment of coupled oscillators. Numerical simulations and experimental implementation on a physical robot demonstrate the effectiveness of the proposed locomotioncontroller.

am

link (url) [BibTex]

link (url) [BibTex]


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Towards Tractable Parameter-Free Statistical Learning (Phd Thesis)

D’Souza, A

Department of Computer Science, University of Southern California, Los Angeles, 2004, clmc (phdthesis)

am

link (url) [BibTex]

link (url) [BibTex]


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Critical sizes for ferromagnetic spherical hollow nanoparticles

Goll, D., Berkowitz, A. E., Bertram, H. N.

{Physical Review B}, 70(18), 2004 (article)

mms

[BibTex]

[BibTex]


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Grain boundary wetting by a solid phase; microstructural development in a Zn-5 wt\textpercent Al alloy

Lopez, G. A., Mittemeijer, E. J., Straumal, B. B.

{Acta Materialia}, 52(15):4537-4545, 2004 (article)

mms

[BibTex]

[BibTex]


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Dynamik von Wasserstoff in nanokristallinen Systemen

Stanik, E.

Universität Stuttgart, Stuttgart, 2004 (phdthesis)

mms

[BibTex]

[BibTex]


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Electronic correlations, magnetism, and structure of Fe-Al subsystems: An LDA+U study

Lechermann, F., Fähnle, M., Meyer, B., Elsässer, C.

{Physical Review B}, 69, 2004 (article)

mms

[BibTex]

[BibTex]


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Inselwachstum auf Festkörperoberflächen unter Ionenbestrahlung

Frank, A.

Universität Stuttgart, Stuttgart, 2004 (phdthesis)

mms

link (url) [BibTex]

link (url) [BibTex]


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Flusslinienverankerung in HTSL-Schichten mit kontrollierter Defektstruktur im Nanometerbereich

Leonhardt, S.

Universität Stuttgart, Stuttgart, 2004 (phdthesis)

mms

[BibTex]

[BibTex]


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High-speed dynamics of magnetization processes in hard magnetic particles and thin platelets

Goll, D., Kronmüller, H.

In Proceedings of the 18th International Workshop on Rare-Earth Magnets and their Applications, pages: 465-469, Laboratoire de Cristallographie/Laboratoire Louis Neel, CNRS, Grenoble, 2004 (inproceedings)

mms

[BibTex]

[BibTex]


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Interaction of hydrogen isotopes with carbon nanostructures

Haluska, M., Hirscher, M., Becher, M., Dettlaff-Weglikowska, U., Chen, X., Roth, S.

{Materials Science and Engineering B}, 108, pages: 130-133, 2004 (article)

mms

[BibTex]

[BibTex]


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Formation of nanograined structure and decomposition of supersaturated solid solution during high pressure torsion of Al-Zn and Al-Mg alloys

Straumal, B. B., Baretzky, B., Mazilkin, A. A., Phillipp, F., Kogtenkova, O. A., Volkov, M. N., Valiev, R. Z.

{Acta Materialia}, 52, pages: 4469-4478, 2004 (article)

mms

[BibTex]

[BibTex]


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Ab-initio modeling of nonlinear magnetoelastic coupling in epitaxial films

Komelj, M., Fähnle, M.

{Journal of Magnetism and Magnetic Materials}, 272-276, pages: e1587-e1588, 2004 (article)

mms

[BibTex]

[BibTex]


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Modern nanocrystalline/nanostructured hard magnetic materials

Kronmüller, H., Goll, D.

In 272-276, pages: e319-e320, Rome [Italy], 2004 (inproceedings)

mms

[BibTex]

[BibTex]


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Modern nanostructured high-temperature permanent magnets

Goll, D., Kronmüller, H., Stadelmaier, H. H.

In Proceedings of the 18th International Workshop on Rare-Earth Magnets and their Applications, pages: 578-583, Laboratoire de Cristallographie/Laboratoire Louis Néel, CNRS, Grenoble, 2004 (inproceedings)

mms

[BibTex]

[BibTex]