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2016


Implications of Action-Oriented Paradigm Shifts in Cognitive Science
Implications of Action-Oriented Paradigm Shifts in Cognitive Science

Dominey, P. F., Prescott, T. J., Bohg, J., Engel, A. K., Gallagher, S., Heed, T., Hoffmann, M., Knoblich, G., Prinz, W., Schwartz, A.

In The Pragmatic Turn - Toward Action-Oriented Views in Cognitive Science, 18, pages: 333-356, 20, Strüngmann Forum Reports, vol. 18, J. Lupp, series editor, (Editors: Andreas K. Engel and Karl J. Friston and Danica Kragic), The MIT Press, 18th Ernst Strüngmann Forum, May 2016 (incollection) In press

Abstract
An action-oriented perspective changes the role of an individual from a passive observer to an actively engaged agent interacting in a closed loop with the world as well as with others. Cognition exists to serve action within a landscape that contains both. This chapter surveys this landscape and addresses the status of the pragmatic turn. Its potential influence on science and the study of cognition are considered (including perception, social cognition, social interaction, sensorimotor entrainment, and language acquisition) and its impact on how neuroscience is studied is also investigated (with the notion that brains do not passively build models, but instead support the guidance of action). A review of its implications in robotics and engineering includes a discussion of the application of enactive control principles to couple action and perception in robotics as well as the conceptualization of system design in a more holistic, less modular manner. Practical applications that can impact the human condition are reviewed (e.g. educational applications, treatment possibilities for developmental and psychopathological disorders, the development of neural prostheses). All of this foreshadows the potential societal implications of the pragmatic turn. The chapter concludes that an action-oriented approach emphasizes a continuum of interaction between technical aspects of cognitive systems and robotics, biology, psychology, the social sciences, and the humanities, where the individual is part of a grounded cultural system.

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The Pragmatic Turn - Toward Action-Oriented Views in Cognitive Science 18th Ernst Strüngmann Forum Bibliography Chapter link (url) [BibTex]

2016


The Pragmatic Turn - Toward Action-Oriented Views in Cognitive Science 18th Ernst Strüngmann Forum Bibliography Chapter link (url) [BibTex]


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Autofocusing-based correction of B0 fluctuation-induced ghosting

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

24th Annual Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM), May 2016 (poster)

ei

link (url) [BibTex]

link (url) [BibTex]


Learning Action-Perception Cycles in Robotics: A Question of Representations and Embodiment
Learning Action-Perception Cycles in Robotics: A Question of Representations and Embodiment

Bohg, J., Kragic, D.

In The Pragmatic Turn - Toward Action-Oriented Views in Cognitive Science, 18, pages: 309-320, 18, Strüngmann Forum Reports, vol. 18, J. Lupp, series editor, (Editors: Andreas K. Engel and Karl J. Friston and Danica Kragic), The MIT Press, 18th Ernst Strüngmann Forum, May 2016 (incollection) In press

Abstract
Since the 1950s, robotics research has sought to build a general-purpose agent capable of autonomous, open-ended interaction with realistic, unconstrained environments. Cognition is perceived to be at the core of this process, yet understanding has been challenged because cognition is referred to differently within and across research areas, and is not clearly defined. The classic robotics approach is decomposition into functional modules which perform planning, reasoning, and problem-solving or provide input to these mechanisms. Although advancements have been made and numerous success stories reported in specific niches, this systems-engineering approach has not succeeded in building such a cognitive agent. The emergence of an action-oriented paradigm offers a new approach: action and perception are no longer separable into functional modules but must be considered in a complete loop. This chapter reviews work on different mechanisms for action- perception learning and discusses the role of embodiment in the design of the underlying representations and learning. It discusses the evaluation of agents and suggests the development of a new embodied Turing Test. Appropriate scenarios need to be devised in addition to current competitions, so that abilities can be tested over long time periods.

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18th Ernst Strüngmann Forum The Pragmatic Turn- Toward Action-Oriented Views in Cognitive Science Bibliography Chapter link (url) [BibTex]

18th Ernst Strüngmann Forum The Pragmatic Turn- Toward Action-Oriented Views in Cognitive Science Bibliography Chapter link (url) [BibTex]


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Distinct adaptation to abrupt and gradual torque perturbations with a multi-joint exoskeleton robot

Oh, Y., Sutanto, G., Mistry, M., Schweighofer, N., Schaal, S.

Abstracts of Neural Control of Movement Conference (NCM 2016), Montego Bay, Jamaica, April 2016 (poster)

am

[BibTex]

[BibTex]


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Novel Random Forest based framework enables the segmentation of cerebral ischemic regions using multiparametric MRI

Katiyar, P., Castaneda, S., Patzwaldt, K., Russo, F., Poli, S., Ziemann, U., Disselhorst, J. A., Pichler, B. J.

European Molecular Imaging Meeting, 2016 (poster)

ei

link (url) [BibTex]

link (url) [BibTex]


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PGO wave-triggered functional MRI: mapping the networks underlying synaptic consolidation

Logothetis, N. K., Murayama, Y., Ramirez-Villegas, J. F., Besserve, M., Evrard, H.

47th Annual Meeting of the Society for Neuroscience (Neuroscience), 2016 (poster)

ei

[BibTex]

[BibTex]


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Annales des Concours 2016 MP Mathématiques, Informatique

Batog, G., Dumont, J., Puyhaubert, V.

In corrigés des problèmes posés aux concours CCP, Centrale/Supélec, Mines/Ponts, X/ENS, 2016 (inbook)

H&K Éditions [BibTex]

H&K Éditions [BibTex]


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Sustainable effects of simulator-based training on ecological driving

Lüderitz, C., Wirzberger, M., Karrer-Gauß, K.

In Advances in Ergonomic Design of Systems, Products and Processes. Proceedings of the Annual Meeting of the GfA 2015, pages: 463-475, Springer, 2016 (inbook)

Abstract
Simulation-based driver training offers a promising way to teach ecological driving behavior under controlled, comparable conditions. In a study with 23 professional drivers, we tested the effectiveness of such training. The driving behavior of a training group in a simulated drive with and without instructions were compared. Ten weeks later, a repetition drive tested the long-term effect training. Driving data revealed reduced fuel consumption by ecological driving in both the guided and repetition drives. Driving time decreased significantly in the training and did not differ from driving time after 10 weeks. Results did not achieve significance for transfer to test drives in real traffic situations. This may be due to the small sample size and biased data as a result of unusual driving behavior. Finally, recent and promising approaches to support drivers in maintaining eco-driving styles beyond training situations are outlined.

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DOI [BibTex]

DOI [BibTex]


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Nonlinear functional causal models for distinguishing cause from effect

Zhang, K., Hyvärinen, A.

In Statistics and Causality: Methods for Applied Empirical Research, pages: 185-201, 8, 1st, (Editors: Wolfgang Wiedermann and Alexander von Eye), John Wiley & Sons, Inc., 2016 (inbook)

ei

[BibTex]

[BibTex]


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Analysis of multiparametric MRI using a semi-supervised random forest framework allows the detection of therapy response in ischemic stroke

Castaneda, S., Katiyar, P., Russo, F., Calaminus, C., Disselhorst, J. A., Ziemann, U., Kohlhofer, U., Quintanilla-Martinez, L., Poli, S., Pichler, B. J.

World Molecular Imaging Conference, 2016 (talk)

ei

link (url) [BibTex]

link (url) [BibTex]


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A cognitive brain–computer interface for patients with amyotrophic lateral sclerosis

Hohmann, M., Fomina, T., Jayaram, V., Widmann, N., Förster, C., Just, J., Synofzik, M., Schölkopf, B., Schöls, L., Grosse-Wentrup, M.

In Brain-Computer Interfaces: Lab Experiments to Real-World Applications, 228(Supplement C):221-239, 8, Progress in Brain Research, (Editors: Damien Coyle), Elsevier, 2016 (incollection)

ei

DOI Project Page [BibTex]

DOI Project Page [BibTex]


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Multiparametric Imaging of Ischemic Stroke using [89Zr]-Desferal-EPO-PET/MRI in combination with Gaussian Mixture Modeling enables unsupervised lesions identification

Castaneda, S., Katiyar, P., Russo, F., Maurer, A., Patzwaldt, K., Poli, S., Calaminus, C., Disselhorst, J. A., Ziemann, U., Pichler, B. J.

European Molecular Imaging Meeting, 2016 (poster)

ei

link (url) [BibTex]

link (url) [BibTex]


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Locally Weighted Regression for Control

Ting, J., Meier, F., Vijayakumar, S., Schaal, S.

In Encyclopedia of Machine Learning and Data Mining, pages: 1-14, Springer US, Boston, MA, 2016 (inbook)

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link (url) DOI [BibTex]

link (url) DOI [BibTex]


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Statistical source separation of rhythmic LFP patterns during sharp wave ripples in the macaque hippocampus

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

47th Annual Meeting of the Society for Neuroscience (Neuroscience), 2016 (poster)

ei

[BibTex]

[BibTex]


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Screening Rules for Convex Problems

Raj, A., Olbrich, J., Gärtner, B., Schölkopf, B., Jaggi, M.

2016 (unpublished) Submitted

ei

[BibTex]

[BibTex]


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Multi-view learning on multiparametric PET/MRI quantifies intratumoral heterogeneity and determines therapy efficacy

Katiyar, P., Divine, M. R., Kohlhofer, U., Quintanilla-Martinez, L., Siegemund, M., Pfizenmaier, K., Kontermann, R., Pichler, B. J., Disselhorst, J. A.

World Molecular Imaging Conference, 2016 (talk)

ei

link (url) [BibTex]

link (url) [BibTex]


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Hippocampal neural events predict ongoing brain-wide BOLD activity

Besserve, M., Logothetis, N. K.

47th Annual Meeting of the Society for Neuroscience (Neuroscience), 2016 (poster)

ei

[BibTex]

[BibTex]

2014


Advanced Structured Prediction
Advanced Structured Prediction

Nowozin, S., Gehler, P. V., Jancsary, J., Lampert, C. H.

Advanced Structured Prediction, pages: 432, Neural Information Processing Series, MIT Press, November 2014 (book)

Abstract
The goal of structured prediction is to build machine learning models that predict relational information that itself has structure, such as being composed of multiple interrelated parts. These models, which reflect prior knowledge, task-specific relations, and constraints, are used in fields including computer vision, speech recognition, natural language processing, and computational biology. They can carry out such tasks as predicting a natural language sentence, or segmenting an image into meaningful components. These models are expressive and powerful, but exact computation is often intractable. A broad research effort in recent years has aimed at designing structured prediction models and approximate inference and learning procedures that are computationally efficient. This volume offers an overview of this recent research in order to make the work accessible to a broader research community. The chapters, by leading researchers in the field, cover a range of topics, including research trends, the linear programming relaxation approach, innovations in probabilistic modeling, recent theoretical progress, and resource-aware learning.

ps

publisher link (url) [BibTex]

2014


publisher link (url) [BibTex]


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Dynamical source analysis of hippocampal sharp-wave ripple episodes

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

Bernstein Conference, 2014 (poster)

ei

DOI [BibTex]

DOI [BibTex]


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Learning Motor Skills: From Algorithms to Robot Experiments

Kober, J., Peters, J.

97, pages: 191, Springer Tracts in Advanced Robotics, Springer, 2014 (book)

ei

DOI [BibTex]

DOI [BibTex]


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Computational Diffusion MRI and Brain Connectivity

Schultz, T., Nedjati-Gilani, G., Venkataraman, A., O’Donnell, L., Panagiotaki, E.

pages: 255, Mathematics and Visualization, Springer, 2014 (book)

ei

Web [BibTex]

Web [BibTex]


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Unsupervised identification of neural events in local field potentials

Besserve, M., Schölkopf, B., Logothetis, N. K.

44th Annual Meeting of the Society for Neuroscience (Neuroscience), 2014 (talk)

ei

[BibTex]

[BibTex]


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Quantifying statistical dependency

Besserve, M.

Research Network on Learning Systems Summer School, 2014 (talk)

ei

[BibTex]

[BibTex]


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FID-guided retrospective motion correction based on autofocusing

Babayeva, M., Loktyushin, A., Kober, T., Granziera, C., Nickisch, H., Gruetter, R., Krueger, G.

Joint Annual Meeting ISMRM-ESMRMB, Milano, Italy, 2014 (poster)

ei

[BibTex]

[BibTex]


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Single-Source Domain Adaptation with Target and Conditional Shift

Zhang, K., Schölkopf, B., Muandet, K., Wang, Z., Zhou, Z., Persello, C.

In Regularization, Optimization, Kernels, and Support Vector Machines, pages: 427-456, 19, Chapman & Hall/CRC Machine Learning & Pattern Recognition, (Editors: Suykens, J. A. K., Signoretto, M. and Argyriou, A.), Chapman and Hall/CRC, Boca Raton, USA, 2014 (inbook)

ei

[BibTex]

[BibTex]


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Higher-Order Tensors in Diffusion Imaging

Schultz, T., Fuster, A., Ghosh, A., Deriche, R., Florack, L., Lim, L.

In Visualization and Processing of Tensors and Higher Order Descriptors for Multi-Valued Data, pages: 129-161, Mathematics + Visualization, (Editors: Westin, C.-F., Vilanova, A. and Burgeth, B.), Springer, 2014 (inbook)

ei

[BibTex]

[BibTex]


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Fuzzy Fibers: Uncertainty in dMRI Tractography

Schultz, T., Vilanova, A., Brecheisen, R., Kindlmann, G.

In Scientific Visualization: Uncertainty, Multifield, Biomedical, and Scalable Visualization, pages: 79-92, 8, Mathematics + Visualization, (Editors: Hansen, C. D., Chen, M., Johnson, C. R., Kaufman, A. E. and Hagen, H.), Springer, 2014 (inbook)

ei

[BibTex]

[BibTex]


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Cluster analysis of sharp-wave ripple field potential signatures in the macaque hippocampus

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

Computational and Systems Neuroscience Meeting (COSYNE), 2014 (poster)

ei

[BibTex]

[BibTex]


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Nonconvex Proximal Splitting with Computational Errors

Sra, S.

In Regularization, Optimization, Kernels, and Support Vector Machines, pages: 83-102, 4, (Editors: Suykens, J. A. K., Signoretto, M. and Argyriou, A.), CRC Press, 2014 (inbook)

ei

[BibTex]

[BibTex]


Learning People Detectors for Tracking in Crowded Scenes.
Learning People Detectors for Tracking in Crowded Scenes.

Tang, S., Andriluka, M., Milan, A., Schindler, K., Roth, S., Schiele, B.

2014, Scene Understanding Workshop (SUNw, CVPR workshop) (unpublished)

ps

[BibTex]

[BibTex]


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Active Learning - Modern Learning Theory

Balcan, M., Urner, R.

In Encyclopedia of Algorithms, (Editors: Kao, M.-Y.), Springer Berlin Heidelberg, 2014 (incollection)

ei

link (url) DOI [BibTex]

link (url) DOI [BibTex]


Muscle Synergy Features in Behavior Adaptation and Recovery
Muscle Synergy Features in Behavior Adaptation and Recovery

Alnajjar, F. S., Berenz, V., Ken-ichi, O., Ohno, K., Yamada, H., Kondo, I., Shimoda, S.

In Replace, Repair, Restore, Relieve – Bridging Clinical and Engineering Solutions in Neurorehabilitation: Proceedings of the 2nd International Conference on NeuroRehabilitation (ICNR2014), Aalborg, 24-26 June, 2014, pages: 245-253, Springer International Publishing, Cham, 2014 (inbook)

am

link (url) DOI [BibTex]

link (url) DOI [BibTex]


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Active Recognition and Manipulation for Mobile Robot Bin Picking

Holz, D., Nieuwenhuisen, M., Droeschel, D., Stueckler, J., Berner, A., Li, J., Klein, R., Behnke, S.

In Gearing Up and Accelerating Cross-fertilization between Academic and Industrial Robotics Research in Europe: Technology Transfer Experiments from the ECHORD Project, pages: 133-153, Springer, 2014 (inbook)

ev

link (url) DOI [BibTex]

link (url) DOI [BibTex]


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oxel level [18]F-FDG PET/MRI unsupervised segmentation of the tumor microenvironment

Katiyar, P., Divine, M. R., Pichler, B. J., Disselhorst, J. A.

World Molecular Imaging Conference, 2014 (poster)

ei

[BibTex]

[BibTex]


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Increasing Flexibility of Mobile Manipulation and Intuitive Human-Robot Interaction in RoboCup@Home

Stueckler, J., Droeschel, D., Gräve, K., Holz, D., Schreiber, M., Topaldou-Kyniazopoulou, A., Schwarz, M., Behnke, S.

In RoboCup 2013, Robot Soccer World Cup XVII, pages: 135-146, Springer, 2014 (inbook)

ev

link (url) DOI [BibTex]

link (url) DOI [BibTex]


Human Pose Estimation from Video and Inertial Sensors
Human Pose Estimation from Video and Inertial Sensors

Pons-Moll, G.

Ph.D Thesis, -, 2014 (book)

Abstract
The analysis and understanding of human movement is central to many applications such as sports science, medical diagnosis and movie production. The ability to automatically monitor human activity in security sensitive areas such as airports, lobbies or borders is of great practical importance. Furthermore, automatic pose estimation from images leverages the processing and understanding of massive digital libraries available on the Internet. We build upon a model based approach where the human shape is modelled with a surface mesh and the motion is parametrized by a kinematic chain. We then seek for the pose of the model that best explains the available observations coming from different sensors. In a first scenario, we consider a calibrated mult-iview setup in an indoor studio. To obtain very accurate results, we propose a novel tracker that combines information coming from video and a small set of Inertial Measurement Units (IMUs). We do so by locally optimizing a joint energy consisting of a term that measures the likelihood of the video data and a term for the IMU data. This is the first work to successfully combine video and IMUs information for full body pose estimation. When compared to commercial marker based systems the proposed solution is more cost efficient and less intrusive for the user. In a second scenario, we relax the assumption of an indoor studio and we tackle outdoor scenes with background clutter, illumination changes, large recording volumes and difficult motions of people interacting with objects. Again, we combine information from video and IMUs. Here we employ a particle based optimization approach that allows us to be more robust to tracking failures. To satisfy the orientation constraints imposed by the IMUs, we derive an analytic Inverse Kinematics (IK) procedure to sample from the manifold of valid poses. The generated hypothesis come from a lower dimensional manifold and therefore the computational cost can be reduced. Experiments on challenging sequences suggest the proposed tracker can be applied to capture in outdoor scenarios. Furthermore, the proposed IK sampling procedure can be used to integrate any kind of constraints derived from the environment. Finally, we consider the most challenging possible scenario: pose estimation of monocular images. Here, we argue that estimating the pose to the degree of accuracy as in an engineered environment is too ambitious with the current technology. Therefore, we propose to extract meaningful semantic information about the pose directly from image features in a discriminative fashion. In particular, we introduce posebits which are semantic pose descriptors about the geometric relationships between parts in the body. The experiments show that the intermediate step of inferring posebits from images can improve pose estimation from monocular imagery. Furthermore, posebits can be very useful as input feature for many computer vision algorithms.

ps

pdf [BibTex]


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Addressing of Micro-robot Teams and Non-contact Micro-manipulation

Diller, E., Ye, Z., Giltinan, J., Sitti, M.

In Small-Scale Robotics. From Nano-to-Millimeter-Sized Robotic Systems and Applications, pages: 28-38, Springer Berlin Heidelberg, 2014 (incollection)

pi

Project Page [BibTex]

Project Page [BibTex]


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Robot Learning by Guided Self-Organization

Martius, G., Der, R., Herrmann, J. M.

In Guided Self-Organization: Inception, 9, pages: 223-260, Emergence, Complexity and Computation, Springer Berlin Heidelberg, 2014 (incollection)

al

link (url) DOI [BibTex]

link (url) DOI [BibTex]


Simulated Annealing
Simulated Annealing

Gall, J.

In Encyclopedia of Computer Vision, pages: 737-741, 0, (Editors: Ikeuchi, K. ), Springer Verlag, 2014, to appear (inbook)

ps

[BibTex]

[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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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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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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MR-Based PET Attenuation Correction: Method and Validation

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

2007 IEEE Nuclear Science Symposium and Medical Imaging Conference (NSS-MIC 2007), 2007(M16-6):1-2, November 2007 (poster)

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 PDF [BibTex]

PDF PDF [BibTex]


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Estimating receptive fields without spike-triggering

Macke, J., Zeck, G., Bethge, M.

37th annual Meeting of the Society for Neuroscience (Neuroscience 2007), 37(768.1):1, November 2007 (poster)

ei

Web [BibTex]

Web [BibTex]


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Evaluation of Deformable Registration Methods for MR-CT Atlas Alignment

Scheel, V., Hofmann, M., Rehfeld, N., Judenhofer, M., Claussen, C., Pichler, B.

2007 IEEE Nuclear Science Symposium and Medical Imaging Conference (NSS-MIC 2007), 2007(M13-121):1, November 2007 (poster)

Abstract
Deformable registration methods are essential for multimodality imaging. Many different methods exist but due to the complexity of the deformed images a direct comparison of the methods is difficult. One particular application that requires high accuracy registration of MR-CT images is atlas-based attenuation correction for PET/MR. We compare four deformable registration algorithms for 3D image data included in the Open Source "National Library of Medicine Insight Segmentation and Registration Toolkit" (ITK). An interactive landmark based registration using MiraView (Siemens) has been used as gold standard. The automatic algorithms provided by ITK are based on the metrics Mattes mutual information as well as on normalized mutual information. The transformations are calculated by interpolating over a uniform B-Spline grid laying over the image to be warped. The algorithms were tested on head images from 10 subjects. We implemented a measure which segments head interior bone and air based on the CT images and l ow intensity classes of corresponding MRI images. The segmentation of bone is performed by individually calculating the lowest Hounsfield unit threshold for each CT image. The compromise is made by quantifying the number of overlapping voxels of the remaining structures. We show that the algorithms provided by ITK achieve similar or better accuracy than the time-consuming interactive landmark based registration. Thus, ITK provides an ideal platform to generate accurately fused datasets from different modalities, required for example for building training datasets for Atlas-based attenuation correction.

ei

PDF [BibTex]

PDF [BibTex]