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2013


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Eine kryoflexible kovalente organische Gerüststruktur für die effiziente Trennung von Wasserstoffisotopien durch Quantensieben

Oh, H., Kalidindi, S. B., Um, Y., Bureekaew, S., Schmid, R., Fischer, R. A., Hirscher, M.

{Angewandte Chemie}, 125(50):13461-13464, Wiley-VCH Verl., Weinheim, 2013 (article)

mms

DOI [BibTex]

2013


DOI [BibTex]


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Ultrafast demagnetization after laser irradiation in transition metals: Ab initio calculations of the spin-flip electron-phonon scattering with reduced exchange splitting

Illg, C., Haag, M., Fähnle, M.

{Physical Review B}, 88, American Physical Society, Woodbury, NY, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Phase diagram for magnetic vortex core switching studied by ferromagnetic absorption spectroscopy and time-resolved transmission x-ray microscopy

Martens, M., Kamionka, T., Weigand, M., Stoll, H., Tyliszczak, T., Meier, G.

{Physical Review B}, 87, Published by the American Physical Society through the American Institute of Physics, Woodbury, NY, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Optimal distribution of contact forces with inverse-dynamics control

Righetti, L., Buchli, J., Mistry, M., Kalakrishnan, M., Schaal, S.

The International Journal of Robotics Research, 32(3):280-298, March 2013 (article)

Abstract
The development of legged robots for complex environments requires controllers that guarantee both high tracking performance and compliance with the environment. More specifically the control of the contact interaction with the environment is of crucial importance to ensure stable, robust and safe motions. In this contribution we develop an inverse-dynamics controller for floating-base robots under contact constraints that can minimize any combination of linear and quadratic costs in the contact constraints and the commands. Our main result is the exact analytical derivation of the controller. Such a result is particularly relevant for legged robots as it allows us to use torque redundancy to directly optimize contact interactions. For example, given a desired locomotion behavior, we can guarantee the minimization of contact forces to reduce slipping on difficult terrains while ensuring high tracking performance of the desired motion. The main advantages of the controller are its simplicity, computational efficiency and robustness to model inaccuracies. We present detailed experimental results on simulated humanoid and quadruped robots as well as a real quadruped robot. The experiments demonstrate that the controller can greatly improve the robustness of locomotion of the robots.1

am mg

link (url) DOI [BibTex]

link (url) DOI [BibTex]


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Thermodynamics as a theory of decision-making with information-processing costs

Ortega, PA, Braun, DA

Proceedings of the Royal Society of London A, 469(2153):1-18, May 2013 (article)

Abstract
Perfectly rational decision-makers maximize expected utility, but crucially ignore the resource costs incurred when determining optimal actions. Here, we propose a thermodynamically inspired formalization of bounded rational decision-making where information processing is modelled as state changes in thermodynamic systems that can be quantified by differences in free energy. By optimizing a free energy, bounded rational decision-makers trade off expected utility gains and information-processing costs measured by the relative entropy. As a result, the bounded rational decision-making problem can be rephrased in terms of well-known variational principles from statistical physics. In the limit when computational costs are ignored, the maximum expected utility principle is recovered. We discuss links to existing decision-making frameworks and applications to human decision-making experiments that are at odds with expected utility theory. Since most of the mathematical machinery can be borrowed from statistical physics, the main contribution is to re-interpret the formalism of thermodynamic free-energy differences in terms of bounded rational decision-making and to discuss its relationship to human decision-making experiments.

ei

DOI [BibTex]

DOI [BibTex]


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Tank-like module-based climbing robot using passive compliant joints

Seo, T., Sitti, M.

IEEE/ASME Transactions on Mechatronics, 18(1):397-408, 2013 (article)

pi

[BibTex]

[BibTex]


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Enhanced fabrication and characterization of gecko-inspired mushroom-tipped microfiber adhesives

Song, J., Mengüç, Y., Sitti, M.

Journal of Adhesion Science and Technology, 27(17):1921-1932, Routledge, 2013 (article)

pi

Project Page [BibTex]

Project Page [BibTex]


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Linear combination of one-step predictive information with an external reward in an episodic policy gradient setting: a critical analysis

Zahedi, K., Martius, G., Ay, N.

Frontiers in Psychology, 4(801), 2013 (article)

Abstract
One of the main challenges in the field of embodied artificial intelligence is the open-ended autonomous learning of complex behaviours. Our approach is to use task-independent, information-driven intrinsic motivation(s) to support task-dependent learning. The work presented here is a preliminary step in which we investigate the predictive information (the mutual information of the past and future of the sensor stream) as an intrinsic drive, ideally supporting any kind of task acquisition. Previous experiments have shown that the predictive information (PI) is a good candidate to support autonomous, open-ended learning of complex behaviours, because a maximisation of the PI corresponds to an exploration of morphology- and environment-dependent behavioural regularities. The idea is that these regularities can then be exploited in order to solve any given task. Three different experiments are presented and their results lead to the conclusion that the linear combination of the one-step PI with an external reward function is not generally recommended in an episodic policy gradient setting. Only for hard tasks a great speed-up can be achieved at the cost of an asymptotic performance lost.

al

link (url) DOI [BibTex]


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Switching modes in easy and hard axis magnetic reversal in a self-assembled antidot array

Haering, F., Wiedwald, U., Nothelfer, S., Koslowski, B., Ziemann, P., Lechner, L., Wallucks, A., Lebecki, K., Nowak, U., Gräfe, J., Goering, E., Schütz, G.

{Nanotechnology}, 24, IOP Pub., Bristol, UK, 2013 (article)

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DOI Project Page [BibTex]

DOI Project Page [BibTex]


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Time-resolved imaging of nonlinear magnetic domain-wall dynamics in ferromagnetic nanowires

Stein, F.-U., Bocklage, L., Weigand, M., Meier, G.

{Scientific Reports}, 3, Nature Publishing Group, London, UK, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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A cryogenically flexible covalent organic framework for efficient hydrogen isotrope separation by quantum sieving

Oh, H., Kalidindi, S. B., Um, Y., Bureekaew, S., Schmid, R., Fischer, R. A., Hirscher, M.

{Angewandte Chemie International Edition in English}, 52(50):13219-13222, Wiley-VCH Verlag GmbH & Co. KGaA, D-69451 Weinheim, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Unexpected room-temperature ferromagnetism in bulk ZnO

Chen, Y., Goering, E., Jeurgens, L., Wang, Z., Phillipp, F., Baier, J., Tietze, T., Schütz, G.

{Applied Physics Letters}, (103), American Institute of Physics, Melville, NY, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Large-area hard magnetic L10-FePt and composite L10-FePt based nanopatterns

Goll, D., Bublat, T.

{Physica Status Solidi A-Applications and Materials Science}, 210(7):1261-1271, Wiley-VCH, Weinheim, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Wave modes of collective vortex gyration in dipolar-coupled-dot-array magnonic crystals

Han, D., Vogel, A., Jung, H., Lee, K., Weigand, M., Stoll, H., Schütz, G., Fischer, P., Meier, G., Kim, S.

{Scientific Reports}, 3, Nature Publishing Group, London, UK, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Micro-scale mobile robotics

Diller, E., Sitti, M.

Foundations and Trends in Robotics, 2(3):143-259, Now Publishers Incorporated, 2013 (article)

pi

[BibTex]

[BibTex]


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Survey and Introduction to the Focused Section on Bio-Inspired Mechatronics

Sitti, M., Menciassi, A., Ijspeert, A., Low, K. H., Kim, S.

Mechatronics, IEEE/ASME Transactions on, 18(2):409-418, DOI: 10.1109/TMECH.2012. 2233492, 2013 (article)

pi

[BibTex]

[BibTex]


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Robustness of guided self-organization against sensorimotor disruptions

Martius, G.

Advances in Complex Systems, 16(02n03):1350001, 2013 (article)

Abstract
Self-organizing processes are crucial for the development of living beings. Practical applications in robots may benefit from the self-organization of behavior, e.g.~to increase fault tolerance and enhance flexibility, provided that external goals can also be achieved. We present results on the guidance of self-organizing control by visual target stimuli and show a remarkable robustness to sensorimotor disruptions. In a proof of concept study an autonomous wheeled robot is learning an object finding and ball-pushing task from scratch within a few minutes in continuous domains. The robustness is demonstrated by the rapid recovery of the performance after severe changes of the sensor configuration.

al

DOI [BibTex]

DOI [BibTex]


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Controlled Reduction with Unactuated Cyclic Variables: Application to 3D Bipedal Walking with Passive Yaw Rotation

Gregg, R., Righetti, L.

IEEE Transactions on Automatic Control, 58(10):2679-2685, October 2013 (article)

Abstract
This technical note shows that viscous damping can shape momentum conservation laws in a manner that stabilizes yaw rotation and enables steering for underactuated 3D walking. We first show that unactuated cyclic variables can be controlled by passively shaped conservation laws given a stabilizing controller in the actuated coordinates. We then exploit this result to realize controlled geometric reduction with multiple unactuated cyclic variables. We apply this underactuated control strategy to a five-link 3D biped to produce exponentially stable straight-ahead walking and steering in the presence of passive yawing.

mg

link (url) DOI [BibTex]

link (url) DOI [BibTex]


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Ferromagnetism of zinc oxide nanograined films

Straumal, B. B., Protasova, S. G., Mazilkin, A. A., Schütz, G., Goering, E., Baretzky, B., Straumal, P. B.

{Journal of Experimental and Theoretical Physics Letters}, 97(6):367-377, Pleiades Publishing, Inc., 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Hydrogen adsorption properties of platinum decorated hierarchically structured templated carbons

Oh, H., Gennett, T., Atanassov, P., Kurttepeli, M., Bals, S., Hurst, K. E., Hirscher, M.

{Microporous and Mesoporous Materials}, pages: 66-74, Elsevier, Amsterdam, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Extended s-d models for the dynamics of noncollinear magnetization: Short review of two different approaches

Fähnle, M., Zhang, S.

{Journal of Magnetism and Magnetic Materials}, 326, pages: 232-234, NH, Elsevier, Amsterdam, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Correlation between spin structure oscillations and domain wall velocities

Bisig, A., Stärk, M., Mawass, M., Moutafis, C., Rhensius, J., Heidler, J., Büttner, F., Noske, M., Weigand, M., Eisebitt, S., Tyliszczak, T., Van Wayenberge, B., Stoll, H., Schütz, G., Kläui, M.

{Nature Communications}, 4, Nature Publishing Group, London, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Recent advances in use of atomic layer deposition and focused ion beams for fabrication of Fresnel zone plates for hard x-rays

Keskinbora, K., Robisch, A., Mayer, M., Grévent, C., Szeghalmi, A. V., Knez, M., Weigand, M., Snigireva, I., Snigirev, A., Salditt, T., Schütz, G.

{Proceedings of SPIE (The International Society for Optical Engineering)}, 8851, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Magnetic states in low-pinning high-anisotropy material nanostructures suitable for dynamic imaging

Büttner, F., Moutafis, C., Bisig, A., Wohlhüter, P., Günther, C. M., Mohanty, J., Geilhufe, J., Schneider, M., v. Korff Schmising, C., Schaffert, S., Pfau, B., Hantschmann, M., Riemeier, M., Emmel, M., Finizio, S., Jakob, G., Weigand, M., Rhensius, J., Franken, J. H., Lavrijsen, R., Swagten, H. J. M., Stoll, H., Eisebitt, S., Kläui, M.

{Physical Review B}, 87, Published by the American Physical Society through the American Institute of Physics, Woodbury, NY, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


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Experimental and theoretical study of D2/H2 quantum sieving in a carbon molecular sieve

Gotzias, A., Charalambopoulou, G., Ampoumogli, A., Krkljus, I., Hirscher, M., Steriotis, T.

{Adsorption}, 19(2-4):373-379, Springer Science+Business Media, New York, 2013 (article)

mms

DOI [BibTex]

DOI [BibTex]


Thumb xl 2013 ivc rkek teaser
Non-parametric hand pose estimation with object context

Romero, J., Kjellström, H., Ek, C. H., Kragic, D.

Image and Vision Computing , 31(8):555 - 564, 2013 (article)

Abstract
In the spirit of recent work on contextual recognition and estimation, we present a method for estimating the pose of human hands, employing information about the shape of the object in the hand. Despite the fact that most applications of human hand tracking involve grasping and manipulation of objects, the majority of methods in the literature assume a free hand, isolated from the surrounding environment. Occlusion of the hand from grasped objects does in fact often pose a severe challenge to the estimation of hand pose. In the presented method, object occlusion is not only compensated for, it contributes to the pose estimation in a contextual fashion; this without an explicit model of object shape. Our hand tracking method is non-parametric, performing a nearest neighbor search in a large database (.. entries) of hand poses with and without grasped objects. The system that operates in real time, is robust to self occlusions, object occlusions and segmentation errors, and provides full hand pose reconstruction from monocular video. Temporal consistency in hand pose is taken into account, without explicitly tracking the hand in the high-dim pose space. Experiments show the non-parametric method to outperform other state of the art regression methods, while operating at a significantly lower computational cost than comparable model-based hand tracking methods.

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Publisher site pdf link (url) [BibTex]

Publisher site pdf link (url) [BibTex]

2007


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Reaction graph kernels for discovering missing enzymes in the plant secondary metabolism

Saigo, H., Hattori, M., Tsuda, K.

NIPS Workshop on Machine Learning in Computational Biology, December 2007 (talk)

Abstract
Secondary metabolic pathway in plant is important for finding druggable candidate enzymes. However, there are many enzymes whose functions are still undiscovered especially in organism-specific metabolic pathways. We propose reaction graph kernels for automatically assigning the EC numbers to unknown enzymatic reactions in a metabolic network. Experiments are carried out on KEGG/REACTION database and our method successfully predicted the first three digits of the EC number with 83% accuracy.We also exhaustively predicted missing enzymatic functions in the plant secondary metabolism pathways, and evaluated our results in biochemical validity.

ei

Web [BibTex]

2007


Web [BibTex]


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Positional Oligomer Importance Matrices

Sonnenburg, S., Zien, A., Philips, P., Rätsch, G.

NIPS Workshop on Machine Learning in Computational Biology, December 2007 (talk)

Abstract
At the heart of many important bioinformatics problems, such as gene finding and function prediction, is the classification of biological sequences, above all of DNA and proteins. In many cases, the most accurate classifiers are obtained by training SVMs with complex sequence kernels, for instance for transcription starts or splice sites. However, an often criticized downside of SVMs with complex kernels is that it is very hard for humans to understand the learned decision rules and to derive biological insights from them. To close this gap, we introduce the concept of positional oligomer importance matrices (POIMs) and develop an efficient algorithm for their computation. We demonstrate how they overcome the limitations of sequence logos, and how they can be used to find relevant motifs for different biological phenomena in a straight-forward way. Note that the concept of POIMs is not limited to interpreting SVMs, but is applicable to general k−mer based scoring systems.

ei

Web [BibTex]

Web [BibTex]


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Machine Learning Algorithms for Polymorphism Detection

Schweikert, G., Zeller, G., Weigel, D., Schölkopf, B., Rätsch, G.

NIPS Workshop on Machine Learning in Computational Biology, December 2007 (talk)

ei

Web [BibTex]

Web [BibTex]


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A Tutorial on Spectral Clustering

von Luxburg, U.

Statistics and Computing, 17(4):395-416, December 2007 (article)

Abstract
In recent years, spectral clustering has become one of the most popular modern clustering algorithms. It is simple to implement, can be solved efficiently by standard linear algebra software, and very often outperforms traditional clustering algorithms such as the k-means algorithm. On the first glance spectral clustering appears slightly mysterious, and it is not obvious to see why it works at all and what it really does. The goal of this tutorial is to give some intuition on those questions. We describe different graph Laplacians and their basic properties, present the most common spectral clustering algorithms, and derive those algorithms from scratch by several different approaches. Advantages and disadvantages of the different spectral clustering algorithms are discussed.

ei

PDF PDF DOI [BibTex]

PDF PDF DOI [BibTex]


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An Automated Combination of Kernels for Predicting Protein Subcellular Localization

Zien, A., Ong, C.

NIPS Workshop on Machine Learning in Computational Biology, December 2007 (talk)

Abstract
Protein subcellular localization is a crucial ingredient to many important inferences about cellular processes, including prediction of protein function and protein interactions.We propose a new class of protein sequence kernels which considers all motifs including motifs with gaps. This class of kernels allows the inclusion of pairwise amino acid distances into their computation. We utilize an extension of the multiclass support vector machine (SVM)method which directly solves protein subcellular localization without resorting to the common approach of splitting the problem into several binary classification problems. To automatically search over families of possible amino acid motifs, we optimize over multiple kernels at the same time. We compare our automated approach to four other predictors on three different datasets, and show that we perform better than the current state of the art. Furthermore, our method provides some insights as to which features are most useful for determining subcellular localization, which are in agreement with biological reasoning.

ei

Web [BibTex]

Web [BibTex]


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A Tutorial on Kernel Methods for Categorization

Jäkel, F., Schölkopf, B., Wichmann, F.

Journal of Mathematical Psychology, 51(6):343-358, December 2007 (article)

Abstract
The abilities to learn and to categorize are fundamental for cognitive systems, be it animals or machines, and therefore have attracted attention from engineers and psychologists alike. Modern machine learning methods and psychological models of categorization are remarkably similar, partly because these two fields share a common history in artificial neural networks and reinforcement learning. However, machine learning is now an independent and mature field that has moved beyond psychologically or neurally inspired algorithms towards providing foundations for a theory of learning that is rooted in statistics and functional analysis. Much of this research is potentially interesting for psychological theories of learning and categorization but also hardly accessible for psychologists. Here, we provide a tutorial introduction to a popular class of machine learning tools, called kernel methods. These methods are closely related to perceptrons, radial-basis-function neural networks and exemplar theories of catego rization. Recent theoretical advances in machine learning are closely tied to the idea that the similarity of patterns can be encapsulated in a positive definite kernel. Such a positive definite kernel can define a reproducing kernel Hilbert space which allows one to use powerful tools from functional analysis for the analysis of learning algorithms. We give basic explanations of some key concepts—the so-called kernel trick, the representer theorem and regularization—which may open up the possibility that insights from machine learning can feed back into psychology.

ei

PDF Web DOI [BibTex]

PDF Web DOI [BibTex]


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Accurate Splice site Prediction Using Support Vector Machines

Sonnenburg, S., Schweikert, G., Philips, P., Behr, J., Rätsch, G.

BMC Bioinformatics, 8(Supplement 10):1-16, December 2007 (article)

Abstract
Background: For splice site recognition, one has to solve two classification problems: discriminating true from decoy splice sites for both acceptor and donor sites. Gene finding systems typically rely on Markov Chains to solve these tasks. Results: In this work we consider Support Vector Machines for splice site recognition. We employ the so-called weighted degree kernel which turns out well suited for this task, as we will illustrate in several experiments where we compare its prediction accuracy with that of recently proposed systems. We apply our method to the genome-wide recognition of splice sites in Caenorhabditis elegans, Drosophila melanogaster, Arabidopsis thaliana, Danio rerio, and Homo sapiens. Our performance estimates indicate that splice sites can be recognized very accurately in these genomes and that our method outperforms many other methods including Markov Chains, GeneSplicer and SpliceMachine. We provide genome-wide predictions of splice sites and a stand-alone prediction tool ready to be used for incorporation in a gene finder. Availability: Data, splits, additional information on the model selection, the whole genome predictions, as well as the stand-alone prediction tool are available for download at http:// www.fml.mpg.de/raetsch/projects/splice.

ei

PDF DOI [BibTex]

PDF DOI [BibTex]


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Challenges in Brain-Computer Interface Development: Induction, Measurement, Decoding, Integration

Hill, NJ.

Invited keynote talk at the launch of BrainGain, the Dutch BCI research consortium, November 2007 (talk)

Abstract
I‘ll present a perspective on Brain-Computer Interface development from T{\"u}bingen. Some of the benefits promised by BCI technology lie in the near foreseeable future, and some further away. Our motivation is to make BCI technology feasible for the people who could benefit from what it has to offer soon: namely, people in the "completely locked-in" state. I‘ll mention some of the challenges of working with this user group, and explain the specific directions they have motivated us to take in developing experimental methods, algorithms, and software.

ei

[BibTex]

[BibTex]


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Policy Learning for Robotics

Peters, J.

14th International Conference on Neural Information Processing (ICONIP), November 2007 (talk)

ei

Web [BibTex]

Web [BibTex]


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A unifying framework for robot control with redundant DOFs

Peters, J., Mistry, M., Udwadia, F., Nakanishi, J., Schaal, S.

Autonomous Robots, 24(1):1-12, October 2007 (article)

Abstract
Recently, Udwadia (Proc. R. Soc. Lond. A 2003:1783–1800, 2003) suggested to derive tracking controllers for mechanical systems with redundant degrees-of-freedom (DOFs) using a generalization of Gauss’ principle of least constraint. This method allows reformulating control problems as a special class of optimal controllers. In this paper, we take this line of reasoning one step further and demonstrate that several well-known and also novel nonlinear robot control laws can be derived from this generic methodology. We show experimental verifications on a Sarcos Master Arm robot for some of the derived controllers. The suggested approach offers a promising unification and simplification of nonlinear control law design for robots obeying rigid body dynamics equations, both with or without external constraints, with over-actuation or underactuation, as well as open-chain and closed-chain kinematics.

ei

PDF PDF DOI [BibTex]

PDF PDF DOI [BibTex]


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The Need for Open Source Software in Machine Learning

Sonnenburg, S., Braun, M., Ong, C., Bengio, S., Bottou, L., Holmes, G., LeCun, Y., Müller, K., Pereira, F., Rasmussen, C., Rätsch, G., Schölkopf, B., Smola, A., Vincent, P., Weston, J., Williamson, R.

Journal of Machine Learning Research, 8, pages: 2443-2466, October 2007 (article)

Abstract
Open source tools have recently reached a level of maturity which makes them suitable for building large-scale real-world systems. At the same time, the field of machine learning has developed a large body of powerful learning algorithms for diverse applications. However, the true potential of these methods is not realized, since existing implementations are not openly shared, resulting in software with low usability, and weak interoperability. We argue that this situation can be significantly improved by increasing incentives for researchers to publish their software under an open source model. Additionally, we outline the problems authors are faced with when trying to publish algorithmic implementations of machine learning methods. We believe that a resource of peer reviewed software accompanied by short articles would be highly valuable to both the machine learning and the general scientific community.

ei

PDF Web [BibTex]

PDF Web [BibTex]


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Hilbert Space Representations of Probability Distributions

Gretton, A.

2nd Workshop on Machine Learning and Optimization at the ISM, October 2007 (talk)

Abstract
Many problems in unsupervised learning require the analysis of features of probability distributions. At the most fundamental level, we might wish to determine whether two distributions are the same, based on samples from each - this is known as the two-sample or homogeneity problem. We use kernel methods to address this problem, by mapping probability distributions to elements in a reproducing kernel Hilbert space (RKHS). Given a sufficiently rich RKHS, these representations are unique: thus comparing feature space representations allows us to compare distributions without ambiguity. Applications include testing whether cancer subtypes are distinguishable on the basis of DNA microarray data, and whether low frequency oscillations measured at an electrode in the cortex have a different distribution during a neural spike. A more difficult problem is to discover whether two random variables drawn from a joint distribution are independent. It turns out that any dependence between pairs of random variables can be encoded in a cross-covariance operator between appropriate RKHS representations of the variables, and we may test independence by looking at a norm of the operator. We demonstrate this independence test by establishing dependence between an English text and its French translation, as opposed to French text on the same topic but otherwise unrelated. Finally, we show that this operator norm is itself a difference in feature means.

ei

PDF Web [BibTex]

PDF Web [BibTex]


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Regression with Intervals

Kashima, H., Yamazaki, K., Saigo, H., Inokuchi, A.

International Workshop on Data-Mining and Statistical Science (DMSS2007), October 2007, JSAI Incentive Award. Talk was given by Hisashi Kashima. (talk)

ei

Web [BibTex]

Web [BibTex]


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Some observations on the masking effects of Mach bands

Curnow, T., Cowie, DA., Henning, GB., Hill, NJ.

Journal of the Optical Society of America A, 24(10):3233-3241, October 2007 (article)

Abstract
There are 8 cycle / deg ripples or oscillations in performance as a function of location near Mach bands in experiments measuring Mach bands’ masking effects on random polarity signal bars. The oscillations with increments are 180 degrees out of phase with those for decrements. The oscillations, much larger than the measurement error, appear to relate to the weighting function of the spatial-frequency-tuned channel detecting the broad- band signals. The ripples disappear with step maskers and become much smaller at durations below 25 ms, implying either that the site of masking has changed or that the weighting function and hence spatial-frequency tuning is slow to develop.

ei

PDF Web DOI [BibTex]

PDF Web DOI [BibTex]


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MR-Based PET Attenuation Correction: Method and Validation

Hofmann, M., Steinke, F., Scheel, V., Brady, M., Schölkopf, B., Pichler, B.

Joint Molecular Imaging Conference, September 2007 (talk)

Abstract
PET/MR combines the high soft tissue contrast of Magnetic Resonance Imaging (MRI) and the functional information of Positron Emission Tomography (PET). For quantitative PET information, correction of tissue photon attenuation is mandatory. Usually in conventional PET, the attenuation map is obtained from a transmission scan, which uses a rotating source, or from the CT scan in case of combined PET/CT. In the case of a PET/MR scanner, there is insufficient space for the rotating source and ideally one would want to calculate the attenuation map from the MR image instead. Since MR images provide information about proton density of the different tissue types, it is not trivial to use this data for PET attenuation correction. We present a method for predicting the PET attenuation map from a given the MR image, using a combination of atlas-registration and recognition of local patterns. Using "leave one out cross validation" we show on a database of 16 MR-CT image pairs that our method reliably allows estimating the CT image from the MR image. Subsequently, as in PET/CT, the PET attenuation map can be predicted from the CT image. On an additional dataset of MR/CT/PET triplets we quantitatively validate that our approach allows PET quantification with an error that is smaller than what would be clinically significant. We demonstrate our approach on T1-weighted human brain scans. However, the presented methods are more general and current research focuses on applying the established methods to human whole body PET/MRI applications.

ei

PDF Web [BibTex]

PDF Web [BibTex]


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Mining complex genotypic features for predicting HIV-1 drug resistance

Saigo, H., Uno, T., Tsuda, K.

Bioinformatics, 23(18):2455-2462, September 2007 (article)

Abstract
Human immunodeficiency virus type 1 (HIV-1) evolves in human body, and its exposure to a drug often causes mutations that enhance the resistance against the drug. To design an effective pharmacotherapy for an individual patient, it is important to accurately predict the drug resistance based on genotype data. Notably, the resistance is not just the simple sum of the effects of all mutations. Structural biological studies suggest that the association of mutations is crucial: Even if mutations A or B alone do not affect the resistance, a significant change might happen when the two mutations occur together. Linear regression methods cannot take the associations into account, while decision tree methods can reveal only limited associations. Kernel methods and neural networks implicitly use all possible associations for prediction, but cannot select salient associations explicitly. Our method, itemset boosting, performs linear regression in the complete space of power sets of mutations. It implements a forward feature selection procedure where, in each iteration, one mutation combination is found by an efficient branch-and-bound search. This method uses all possible combinations, and salient associations are explicitly shown. In experiments, our method worked particularly well for predicting the resistance of nucleotide reverse transcriptase inhibitors (NRTIs). Furthermore, it successfully recovered many mutation associations known in biological literature.

ei

Web DOI [BibTex]

Web DOI [BibTex]


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Bayesian methods for NMR structure determination

Habeck, M.

29th Annual Discussion Meeting: Magnetic Resonance in Biophysical Chemistry, September 2007 (talk)

ei

Web [BibTex]

Web [BibTex]


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Real-Time Fetal Heart Monitoring in Biomagnetic Measurements Using Adaptive Real-Time ICA

Waldert, S., Bensch, M., Bogdan, M., Rosenstiel, W., Schölkopf, B., Lowery, C., Eswaran, H., Preissl, H.

IEEE Transactions on Biomedical Engineering, 54(10):1867-1874, September 2007 (article)

Abstract
Electrophysiological signals of the developing fetal brain and heart can be investigated by fetal magnetoencephalography (fMEG). During such investigations, the fetal heart activity and that of the mother should be monitored continuously to provide an important indication of current well-being. Due to physical constraints of an fMEG system, it is not possible to use clinically established heart monitors for this purpose. Considering this constraint, we developed a real-time heart monitoring system for biomagnetic measurements and showed its reliability and applicability in research and for clinical examinations. The developed system consists of real-time access to fMEG data, an algorithm based on Independent Component Analysis (ICA), and a graphical user interface (GUI). The algorithm extracts the current fetal and maternal heart signal from a noisy and artifact-contaminated data stream in real-time and is able to adapt automatically to continuously varying environmental parameters. This algorithm has been na med Adaptive Real-time ICA (ARICA) and is applicable to real-time artifact removal as well as to related blind signal separation problems.

ei

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PDF Web DOI [BibTex]


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Thinking Out Loud: Research and Development of Brain Computer Interfaces

Hill, NJ.

Invited keynote talk at the Max Planck Society‘s PhDNet Workshop., July 2007 (talk)

Abstract
My principal interest is in applying machine-learning methods to the development of Brain-Computer Interfaces (BCI). This involves the classification of a user‘s intentions or mental states, or regression against some continuous intentional control signal, using brain signals obtained for example by EEG, ECoG or MEG. The long-term aim is to develop systems that a completely paralysed person (such as someone suffering from advanced Amyotrophic Lateral Sclerosis) could use to communicate. Such systems have the potential to improve the lives of many people who would be otherwise completely unable to communicate, but they are still very much in the research and development stages.

ei

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PDF [BibTex]


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Feature Selection for Trouble Shooting in Complex Assembly Lines

Pfingsten, T., Herrmann, D., Schnitzler, T., Feustel, A., Schölkopf, B.

IEEE Transactions on Automation Science and Engineering, 4(3):465-469, July 2007 (article)

Abstract
The final properties of sophisticated products can be affected by many unapparent dependencies within the manufacturing process, and the products’ integrity can often only be checked in a final measurement. Troubleshooting can therefore be very tedious if not impossible in large assembly lines. In this paper we show that Feature Selection is an efficient tool for serial-grouped lines to reveal causes for irregularities in product attributes. We compare the performance of several methods for Feature Selection on real-world problems in mass-production of semiconductor devices. Note to Practitioners— We present a data based procedure to localize flaws in large production lines: using the results of final quality inspections and information about which machines processed which batches, we are able to identify machines which cause low yield.

ei

PDF Web DOI [BibTex]

PDF Web DOI [BibTex]