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2018


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Parallel and functionally segregated processing of task phase and conscious content in the prefrontal cortex

Kapoor, V., Besserve, M., Logothetis, N. K., Panagiotaropoulos, T. I.

Communications Biology, 1(215):1-12, December 2018 (article)

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link (url) DOI [BibTex]

2018


link (url) DOI [BibTex]


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Control of Musculoskeletal Systems using Learned Dynamics Models

Büchler, D., Calandra, R., Schölkopf, B., Peters, J.

IEEE Robotics and Automation Letters, Robotics and Automation Letters, 3(4):3161-3168, IEEE, 2018 (article)

Abstract
Controlling musculoskeletal systems, especially robots actuated by pneumatic artificial muscles, is a challenging task due to nonlinearities, hysteresis effects, massive actuator de- lay and unobservable dependencies such as temperature. Despite such difficulties, muscular systems offer many beneficial prop- erties to achieve human-comparable performance in uncertain and fast-changing tasks. For example, muscles are backdrivable and provide variable stiffness while offering high forces to reach high accelerations. In addition, the embodied intelligence deriving from the compliance might reduce the control demands for specific tasks. In this paper, we address the problem of how to accurately control musculoskeletal robots. To address this issue, we propose to learn probabilistic forward dynamics models using Gaussian processes and, subsequently, to employ these models for control. However, Gaussian processes dynamics models cannot be set-up for our musculoskeletal robot as for traditional motor- driven robots because of unclear state composition etc. We hence empirically study and discuss in detail how to tune these approaches to complex musculoskeletal robots and their specific challenges. Moreover, we show that our model can be used to accurately control an antagonistic pair of pneumatic artificial muscles for a trajectory tracking task while considering only one- step-ahead predictions of the forward model and incorporating model uncertainty.

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RAL18final link (url) DOI [BibTex]

RAL18final link (url) DOI [BibTex]


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Infinite Factorial Finite State Machine for Blind Multiuser Channel Estimation

Ruiz, F. J. R., Valera, I., Svensson, L., Perez-Cruz, F.

IEEE Transactions on Cognitive Communications and Networking, 4(2):177-191, June 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Assisting Movement Training and Execution With Visual and Haptic Feedback

Ewerton, M., Rother, D., Weimar, J., Kollegger, G., Wiemeyer, J., Peters, J., Maeda, G.

Frontiers in Neurorobotics, 12, May 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Mixture of Attractors: A Novel Movement Primitive Representation for Learning Motor Skills From Demonstrations

Manschitz, S., Gienger, M., Kober, J., Peters, J.

IEEE Robotics and Automation Letters, 3(2):926-933, April 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Probabilistic movement primitives under unknown system dynamics

Paraschos, A., Rueckert, E., Peters, J., Neumann, G.

Advanced Robotics, 32(6):297-310, April 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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An Algorithmic Perspective on Imitation Learning

Osa, T., Pajarinen, J., Neumann, G., Bagnell, J., Abbeel, P., Peters, J.

Foundations and Trends in Robotics, 7(1-2):1-179, March 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Using Probabilistic Movement Primitives in Robotics

Paraschos, A., Daniel, C., Peters, J., Neumann, G.

Autonomous Robots, 42(3):529-551, March 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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A kernel-based approach to learning contact distributions for robot manipulation tasks

Kroemer, O., Leischnig, S., Luettgen, S., Peters, J.

Autonomous Robots, 42(3):581-600, March 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Approximate Value Iteration Based on Numerical Quadrature

Vinogradska, J., Bischoff, B., Peters, J.

IEEE Robotics and Automation Letters, 3(2):1330-1337, January 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Biomimetic Tactile Sensors and Signal Processing with Spike Trains: A Review

Yi, Z., Zhang, Y., Peters, J.

Sensors and Actuators A: Physical, 269, pages: 41-52, January 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Design and Analysis of the NIPS 2016 Review Process

Shah*, N., Tabibian*, B., Muandet, K., Guyon, I., von Luxburg, U.

Journal of Machine Learning Research, 19(49):1-34, 2018, *equal contribution (article)

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arXiv link (url) [BibTex]

arXiv link (url) [BibTex]


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Intrinsic Motivation and Mental Replay enable Efficient Online Adaptation in Stochastic Recurrent Networks

Tanneberg, D., Peters, J., Rueckert, E.

Neural Networks, 109, pages: 67-80, 2018 (article)

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link (url) DOI [BibTex]


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A Flexible Approach for Fair Classification

Zafar, M. B., Valera, I., Gomez Rodriguez, M., Gummadi, K.

Journal of Machine Learning, 2018 (article) Accepted

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[BibTex]

[BibTex]


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Adaptation and Robust Learning of Probabilistic Movement Primitives

Gomez-Gonzalez, S., Neumann, G., Schölkopf, B., Peters, J.

IEEE Transactions on Robotics, 2018 (article) In revision

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arXiv [BibTex]

arXiv [BibTex]


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Does universal controllability of physical systems prohibit thermodynamic cycles?

Janzing, D., Wocjan, P.

Open Systems and Information Dynamics, 25(3):1850016, 2018 (article)

ei

PDF DOI [BibTex]

PDF DOI [BibTex]


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Learning Causality and Causality-Related Learning: Some Recent Progress

Zhang, K., Schölkopf, B., Spirtes, P., Glymour, C.

National Science Review, 5(1):26-29, 2018 (article)

ei

DOI [BibTex]

DOI [BibTex]


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Online optimal trajectory generation for robot table tennis

Koc, O., Maeda, G., Peters, J.

Robotics and Autonomous Systems, 105, pages: 121-137, 2018 (article)

ei

PDF link (url) DOI [BibTex]

PDF link (url) DOI [BibTex]


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Counterfactual Mean Embedding: A Kernel Method for Nonparametric Causal Inference

Muandet, K., Kanagawa, M., Saengkyongam, S., Marukata, S.

Arxiv e-prints, arXiv:1805.08845v1 [stat.ML], 2018 (article)

Abstract
This paper introduces a novel Hilbert space representation of a counterfactual distribution---called counterfactual mean embedding (CME)---with applications in nonparametric causal inference. Counterfactual prediction has become an ubiquitous tool in machine learning applications, such as online advertisement, recommendation systems, and medical diagnosis, whose performance relies on certain interventions. To infer the outcomes of such interventions, we propose to embed the associated counterfactual distribution into a reproducing kernel Hilbert space (RKHS) endowed with a positive definite kernel. Under appropriate assumptions, the CME allows us to perform causal inference over the entire landscape of the counterfactual distribution. The CME can be estimated consistently from observational data without requiring any parametric assumption about the underlying distributions. We also derive a rate of convergence which depends on the smoothness of the conditional mean and the Radon-Nikodym derivative of the underlying marginal distributions. Our framework can deal with not only real-valued outcome, but potentially also more complex and structured outcomes such as images, sequences, and graphs. Lastly, our experimental results on off-policy evaluation tasks demonstrate the advantages of the proposed estimator.

ei pn

arXiv [BibTex]

arXiv [BibTex]


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Hierarchical Reinforcement Learning of Multiple Grasping Strategies with Human Instructions

Osa, T., Peters, J., Neumann, G.

Advanced Robotics, 32(18):955-968, 2018 (article)

ei

DOI [BibTex]

DOI [BibTex]


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Case series: Slowing alpha rhythm in late-stage ALS patients

Hohmann, M. R., Fomina, T., Jayaram, V., Emde, T., Just, J., Synofzik, M., Schölkopf, B., Schöls, L., Grosse-Wentrup, M.

Clinical Neurophysiology, 129(2):406-408, 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Inverse Reinforcement Learning via Nonparametric Spatio-Temporal Subgoal Modeling

Šošić, A., Rueckert, E., Peters, J., Zoubir, A., Koeppl, H.

Journal of Machine Learning Research, 19(69):1-45, 2018 (article)

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link (url) [BibTex]

link (url) [BibTex]


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Grip Stabilization of Novel Objects using Slip Prediction

Veiga, F., Peters, J., Hermans, T.

IEEE Transactions on Haptics, 2018 (article) In press

ei

DOI [BibTex]

DOI [BibTex]


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Electrophysiological correlates of neurodegeneration in motor and non-motor brain regions in amyotrophic lateral sclerosis—implications for brain–computer interfacing

Kellmeyer, P., Grosse-Wentrup, M., Schulze-Bonhage, A., Ziemann, U., Ball, T.

Journal of Neural Engineering, 15(4):041003, IOP Publishing, 2018 (article)

ei

link (url) [BibTex]

link (url) [BibTex]


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Autofocusing-based phase correction

Loktyushin, A., Ehses, P., Schölkopf, B., Scheffler, K.

Magnetic Resonance in Medicine, 80(3):958-968, 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Prediction of Glucose Tolerance without an Oral Glucose Tolerance Test

Babbar, R., Heni, M., Peter, A., Hrabě de Angelis, M., Häring, H., Fritsche, A., Preissl, H., Schölkopf, B., Wagner, R.

Frontiers in Endocrinology, 9, pages: 82, 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Invariant Models for Causal Transfer Learning

Rojas-Carulla, M., Schölkopf, B., Turner, R., Peters, J.

Journal of Machine Learning Research, 19(36):1-34, 2018 (article)

ei

link (url) [BibTex]

link (url) [BibTex]


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MOABB: Trustworthy algorithm benchmarking for BCIs

Jayaram, V., Barachant, A.

Journal of Neural Engineering, 15(6):066011, 2018 (article)

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link (url) DOI [BibTex]

link (url) DOI [BibTex]


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f-Divergence constrained policy improvement

Belousov, B., Peters, J.

Journal of Machine Learning Research, 2018 (article) Submitted

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[BibTex]

[BibTex]


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Phylogenetic convolutional neural networks in metagenomics

Fioravanti*, D., Giarratano*, Y., Maggio*, V., Agostinelli, C., Chierici, M., Jurman, G., Furlanello, C.

BMC Bioinformatics, 19(2):49 pages, 2018, *equal contribution (article)

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DOI [BibTex]

DOI [BibTex]


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Food specific inhibitory control under negative mood in binge-eating disorder: Evidence from a multimethod approach

Leehr, E. J., Schag, K., Dresler, T., Grosse-Wentrup, M., Hautzinger, M., Fallgatter, A. J., Zipfel, S., Giel, K. E., Ehlis, A.

International Journal of Eating Disorders, 51(2):112-123, Wiley Online Library, 2018 (article)

ei

DOI [BibTex]

DOI [BibTex]


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Linking imaging to omics utilizing image-guided tissue extraction

Disselhorst, J. A., Krueger, M. A., Ud-Dean, S. M. M., Bezrukov, I., Jarboui, M. A., Trautwein, C., Traube, A., Spindler, C., Cotton, J. M., Leibfritz, D., Pichler, B. J.

Proceedings of the National Academy of Sciences, 115(13):E2980-E2987, 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Kernel-based tests for joint independence

Pfister, N., Bühlmann, P., Schölkopf, B., Peters, J.

Journal of the Royal Statistical Society: Series B (Statistical Methodology), 80(1):5-31, 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Discriminative Transfer Learning for General Image Restoration

Xiao, L., Heide, F., Heidrich, W., Schölkopf, B., Hirsch, M.

IEEE Transactions on Image Processing, 27(8):4091-4104, 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Dissecting the synapse- and frequency-dependent network mechanisms of in vivo hippocampal sharp wave-ripples

Ramirez-Villegas, J. F., Willeke, K. F., Logothetis, N. K., Besserve, M.

Neuron, 100(5):1224-1240, 2018 (article)

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link (url) DOI [BibTex]

link (url) DOI [BibTex]


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Optimizing Execution of Dynamic Goal-Directed Robot Movements with Learning Control

Koc, O., Maeda, G., Peters, J.

IEEE Transactions on Robotics, 2018 (article) Submitted

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arXiv [BibTex]

arXiv [BibTex]


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Visualizing and understanding Sum-Product Networks

Vergari, A., Di Mauro, N., Esposito, F.

Machine Learning, 2018 (article)

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DOI [BibTex]

DOI [BibTex]


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Learning to serve: an experimental study for a new learning from demonstrations framework

Koc, O., Peters, J.

IEEE Robotics and Automation Letters (ICRA/RA-L), 2018 (article) Accepted

ei

[BibTex]

[BibTex]


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In-Hand Object Stabilization by Independent Finger Control

Veiga, F. F., Edin, B. B., Peters, J.

IEEE Transactions on Robotics, 2018 (article) Submitted

ei

[BibTex]

[BibTex]


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Non-Equilibrium Relations for Bounded Rational Decision-Making in Changing Environments

Grau-Moya, J, Krüger, M, Braun, DA

Entropy, 20(1:1):1-28, January 2018 (article)

Abstract
Living organisms from single cells to humans need to adapt continuously to respond to changes in their environment. The process of behavioural adaptation can be thought of as improving decision-making performance according to some utility function. Here, we consider an abstract model of organisms as decision-makers with limited information-processing resources that trade off between maximization of utility and computational costs measured by a relative entropy, in a similar fashion to thermodynamic systems undergoing isothermal transformations. Such systems minimize the free energy to reach equilibrium states that balance internal energy and entropic cost. When there is a fast change in the environment, these systems evolve in a non-equilibrium fashion because they are unable to follow the path of equilibrium distributions. Here, we apply concepts from non-equilibrium thermodynamics to characterize decision-makers that adapt to changing environments under the assumption that the temporal evolution of the utility function is externally driven and does not depend on the decision-maker’s action. This allows one to quantify performance loss due to imperfect adaptation in a general manner and, additionally, to find relations for decision-making similar to Crooks’ fluctuation theorem and Jarzynski’s equality. We provide simulations of several exemplary decision and inference problems in the discrete and continuous domains to illustrate the new relations.

ei

DOI [BibTex]

DOI [BibTex]

2011


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Causal Inference on Discrete Data using Additive Noise Models

Peters, J., Janzing, D., Schölkopf, B.

IEEE Transactions on Pattern Analysis and Machine Intelligence, 33(12):2436-2450, December 2011 (article)

Abstract
Inferring the causal structure of a set of random variables from a finite sample of the joint distribution is an important problem in science. The case of two random variables is particularly challenging since no (conditional) independences can be exploited. Recent methods that are based on additive noise models suggest the following principle: Whenever the joint distribution {\bf P}^{(X,Y)} admits such a model in one direction, e.g., Y=f(X)+N, N \perp\kern-6pt \perp X, but does not admit the reversed model X=g(Y)+\tilde{N}, \tilde{N} \perp\kern-6pt \perp Y, one infers the former direction to be causal (i.e., X\rightarrow Y). Up to now, these approaches only dealt with continuous variables. In many situations, however, the variables of interest are discrete or even have only finitely many states. In this work, we extend the notion of additive noise models to these cases. We prove that it almost never occurs that additive noise models can be fit in both directions. We further propose an efficient algorithm that is able to perform this way of causal inference on finite samples of discrete variables. We show that the algorithm works on both synthetic and real data sets.

ei

PDF Web DOI [BibTex]

2011


PDF Web DOI [BibTex]


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Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

Becker, C., Hagmann, J., Müller, J., Koenig, D., Stegle, O., Borgwardt, K., Weigel, D.

Nature, 480(7376):245-249, December 2011 (article)

Abstract
Heritable epigenetic polymorphisms, such as differential cytosine methylation, can underlie phenotypic variation1, 2. Moreover, wild strains of the plant Arabidopsis thaliana differ in many epialleles3, 4, and these can influence the expression of nearby genes1, 2. However, to understand their role in evolution5, it is imperative to ascertain the emergence rate and stability of epialleles, including those that are not due to structural variation. We have compared genome-wide DNA methylation among 10 A. thaliana lines, derived 30 generations ago from a common ancestor6. Epimutations at individual positions were easily detected, and close to 30,000 cytosines in each strain were differentially methylated. In contrast, larger regions of contiguous methylation were much more stable, and the frequency of changes was in the same low range as that of DNA mutations7. Like individual positions, the same regions were often affected by differential methylation in independent lines, with evidence for recurrent cycles of forward and reverse mutations. Transposable elements and short interfering RNAs have been causally linked to DNA methylation8. In agreement, differentially methylated sites were farther from transposable elements and showed less association with short interfering RNA expression than invariant positions. The biased distribution and frequent reversion of epimutations have important implications for the potential contribution of sequence-independent epialleles to plant evolution.

ei

Web DOI [BibTex]

Web DOI [BibTex]


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HHfrag: HMM-based fragment detection using HHpred

Kalev, I., Habeck, M.

Bioinformatics, 27(22):3110-3116, November 2011 (article)

Abstract
Motivation: Over the last decade, both static and dynamic fragment libraries for protein structure prediction have been introduced. The former are built from clusters in either sequence or structure space and aim to extract a universal structural alphabet. The latter are tailored for a particular query protein sequence and aim to provide local structural templates that need to be assembled in order to build the full-length structure. Results: Here, we introduce HHfrag, a dynamic HMM-based fragment search method built on the profile–profile comparison tool HHpred. We show that HHfrag provides advantages over existing fragment assignment methods in that it: (i) improves the precision of the fragments at the expense of a minor loss in sequence coverage; (ii) detects fragments of variable length (6–21 amino acid residues); (iii) allows for gapped fragments and (iv) does not assign fragments to regions where there is no clear sequence conservation. We illustrate the usefulness of fragments detected by HHfrag on targets from most recent CASP.

ei

Web DOI [BibTex]

Web DOI [BibTex]


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Reward-Weighted Regression with Sample Reuse for Direct Policy Search in Reinforcement Learning

Hachiya, H., Peters, J., Sugiyama, M.

Neural Computation, 23(11):2798-2832, November 2011 (article)

Abstract
Direct policy search is a promising reinforcement learning framework, in particular for controlling continuous, high-dimensional systems. Policy search often requires a large number of samples for obtaining a stable policy update estimator, and this is prohibitive when the sampling cost is expensive. In this letter, we extend an expectation-maximization-based policy search method so that previously collected samples can be efficiently reused. The usefulness of the proposed method, reward-weighted regression with sample reuse (R), is demonstrated through robot learning experiments.

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Web DOI [BibTex]


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Model Learning in Robotics: a Survey

Nguyen-Tuong, D., Peters, J.

Cognitive Processing, 12(4):319-340, November 2011 (article)

Abstract
Models are among the most essential tools in robotics, such as kinematics and dynamics models of the robot's own body and controllable external objects. It is widely believed that intelligent mammals also rely on internal models in order to generate their actions. However, while classical robotics relies on manually generated models that are based on human insights into physics, future autonomous, cognitive robots need to be able to automatically generate models that are based on information which is extracted from the data streams accessible to the robot. In this paper, we survey the progress in model learning with a strong focus on robot control on a kinematic as well as dynamical level. Here, a model describes essential information about the behavior of the environment and the in uence of an agent on this environment. In the context of model based learning control, we view the model from three di fferent perspectives. First, we need to study the di erent possible model learning architectures for robotics. Second, we discuss what kind of problems these architecture and the domain of robotics imply for the applicable learning methods. From this discussion, we deduce future directions of real-time learning algorithms. Third, we show where these scenarios have been used successfully in several case studies.

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PDF [BibTex]

PDF [BibTex]


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FaST linear mixed models for genome-wide association studies

Lippert, C., Listgarten, J., Liu, Y., Kadie, CM., Davidson, RI., Heckerman, D.

Nature Methods, 8(10):833–835, October 2011 (article)

Abstract
We describe factored spectrally transformed linear mixed models (FaST-LMM), an algorithm for genome-wide association studies (GWAS) that scales linearly with cohort size in both run time and memory use. On Wellcome Trust data for 15,000 individuals, FaST-LMM ran an order of magnitude faster than current efficient algorithms. Our algorithm can analyze data for 120,000 individuals in just a few hours, whereas current algorithms fail on data for even 20,000 individuals (http://mscompbio.codeplex.com/).

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PDF DOI [BibTex]

PDF DOI [BibTex]


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The effect of noise correlations in populations of diversely tuned neurons

Ecker, A., Berens, P., Tolias, A., Bethge, M.

Journal of Neuroscience, 31(40):14272-14283, October 2011 (article)

Abstract
The amount of information encoded by networks of neurons critically depends on the correlation structure of their activity. Neurons with similar stimulus preferences tend to have higher noise correlations than others. In homogeneous populations of neurons, this limited range correlation structure is highly detrimental to the accuracy of a population code. Therefore, reduced spike count correlations under attention, after adaptation, or after learning have been interpreted as evidence for a more efficient population code. Here, we analyze the role of limited range correlations in more realistic, heterogeneous population models. We use Fisher information and maximum-likelihood decoding to show that reduced correlations do not necessarily improve encoding accuracy. In fact, in populations with more than a few hundred neurons, increasing the level of limited range correlations can substantially improve encoding accuracy. We found that this improvement results from a decrease in noise entropy that is associated with increasing correlations if the marginal distributions are unchanged. Surprisingly, for constant noise entropy and in the limit of large populations, the encoding accuracy is independent of both structure and magnitude of noise correlations.

ei

Web DOI [BibTex]

Web DOI [BibTex]


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Analysis of Fixed-Point and Coordinate Descent Algorithms for Regularized Kernel Methods

Dinuzzo, F.

IEEE Transactions on Neural Networks, 22(10):1576-1587, October 2011 (article)

Abstract
In this paper, we analyze the convergence of two general classes of optimization algorithms for regularized kernel methods with convex loss function and quadratic norm regularization. The first methodology is a new class of algorithms based on fixed-point iterations that are well-suited for a parallel implementation and can be used with any convex loss function. The second methodology is based on coordinate descent, and generalizes some techniques previously proposed for linear support vector machines. It exploits the structure of additively separable loss functions to compute solutions of line searches in closed form. The two methodologies are both very easy to implement. In this paper, we also show how to remove non-differentiability of the objective functional by exactly reformulating a convex regularization problem as an unconstrained differentiable stabilization problem.

ei

Web DOI Project Page [BibTex]

Web DOI Project Page [BibTex]