Publications | Empirical Inference - Max Planck Institute for Intelligent Systems

Shajarisales, N. A Novel Causal Inference Method for Time Series Eberhard Karls Universität Tübingen, Germany, Eberhard Karls Universität Tübingen, Germany, 2014 (mastersthesis)

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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)

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Zhang, K., Schölkopf, B., Muandet, K., Wang, Z., Zhou, Z., Persello, C. Single-Source Domain Adaptation with Target and Conditional Shift 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)

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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)

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Schultz, T., Fuster, A., Ghosh, A., Deriche, R., Florack, L., Lim, L. Higher-Order Tensors in Diffusion Imaging 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)

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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)

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Schultz, T., Vilanova, A., Brecheisen, R., Kindlmann, G. Fuzzy Fibers: Uncertainty in dMRI Tractography 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)

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A global analysis of extreme events and consequences for the terrestrial carbon cycle

Zscheischler, J.

Diss. No. 22043, ETH Zurich, Switzerland, ETH Zurich, Switzerland, 2014 (phdthesis)

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Zscheischler, J. A global analysis of extreme events and consequences for the terrestrial carbon cycle Diss. No. 22043, ETH Zurich, Switzerland, ETH Zurich, Switzerland, 2014 (phdthesis)

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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)

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Sra, S. Nonconvex Proximal Splitting with Computational Errors 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)

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Development of advanced methods for improving astronomical images

Schmeißer, N.

Eberhard Karls Universität Tübingen, Germany, Eberhard Karls Universität Tübingen, Germany, 2014 (diplomathesis)

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Schmeißer, N. Development of advanced methods for improving astronomical images Eberhard Karls Universität Tübingen, Germany, Eberhard Karls Universität Tübingen, Germany, 2014 (diplomathesis)

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The Feasibility of Causal Discovery in Complex Systems: An Examination of Climate Change Attribution and Detection

Lacosse, E.

Graduate Training Centre of Neuroscience, University of Tübingen, Germany, Graduate Training Centre of Neuroscience, University of Tübingen, Germany, 2014 (mastersthesis)

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Lacosse, E. The Feasibility of Causal Discovery in Complex Systems: An Examination of Climate Change Attribution and Detection Graduate Training Centre of Neuroscience, University of Tübingen, Germany, Graduate Training Centre of Neuroscience, University of Tübingen, Germany, 2014 (mastersthesis)

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Causal Discovery in the Presence of Time-Dependent Relations or Small Sample Size

Huang, B.

Graduate Training Centre of Neuroscience, University of Tübingen, Germany, Graduate Training Centre of Neuroscience, University of Tübingen, Germany, 2014 (mastersthesis)

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Huang, B. Causal Discovery in the Presence of Time-Dependent Relations or Small Sample Size Graduate Training Centre of Neuroscience, University of Tübingen, Germany, Graduate Training Centre of Neuroscience, University of Tübingen, Germany, 2014 (mastersthesis)

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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)

link (url) DOI [BibTex]

Balcan, M., Urner, R. Active Learning - Modern Learning Theory In Encyclopedia of Algorithms, (Editors: Kao, M.-Y.), Springer Berlin Heidelberg, 2014 (incollection)

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Analysis of Distance Functions in Graphs

Alamgir, M.

University of Hamburg, Germany, University of Hamburg, Germany, 2014 (phdthesis)

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Alamgir, M. Analysis of Distance Functions in Graphs University of Hamburg, Germany, University of Hamburg, Germany, 2014 (phdthesis)

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2013

Camera-specific Image Denoising

Schober, M.

Eberhard Karls Universität Tübingen, Germany, October 2013 (diplomathesis)

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2013

Schober, M. Camera-specific Image Denoising Eberhard Karls Universität Tübingen, Germany, October 2013 (diplomathesis)

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A Review of Performance Variations in SMR-Based Brain–Computer Interfaces (BCIs)

Grosse-Wentrup, M., Schölkopf, B.

In Brain-Computer Interface Research, pages: 39-51, 4, SpringerBriefs in Electrical and Computer Engineering, (Editors: Guger, C., Allison, B. Z. and Edlinger, G.), Springer, 2013 (inbook)

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Grosse-Wentrup, M., Schölkopf, B. A Review of Performance Variations in SMR-Based Brain–Computer Interfaces (BCIs) In Brain-Computer Interface Research, pages: 39-51, 4, SpringerBriefs in Electrical and Computer Engineering, (Editors: Guger, C., Allison, B. Z. and Edlinger, G.), Springer, 2013 (inbook)

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Semi-supervised learning in causal and anticausal settings

Schölkopf, B., Janzing, D., Peters, J., Sgouritsa, E., Zhang, K., Mooij, J.

In Empirical Inference, pages: 129-141, 13, Festschrift in Honor of Vladimir Vapnik, (Editors: Schölkopf, B., Luo, Z. and Vovk, V.), Springer, 2013 (inbook)

DOI [BibTex]

Schölkopf, B., Janzing, D., Peters, J., Sgouritsa, E., Zhang, K., Mooij, J. Semi-supervised learning in causal and anticausal settings In Empirical Inference, pages: 129-141, 13, Festschrift in Honor of Vladimir Vapnik, (Editors: Schölkopf, B., Luo, Z. and Vovk, V.), Springer, 2013 (inbook)

DOI [BibTex]

Tractable large-scale optimization in machine learning

Sra, S.

In Tractability: Practical Approaches to Hard Problems, pages: 202-230, 7, (Editors: Bordeaux, L., Hamadi , Y., Kohli, P. and Mateescu, R. ), Cambridge University Press , 2013 (inbook)

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Sra, S. Tractable large-scale optimization in machine learning In Tractability: Practical Approaches to Hard Problems, pages: 202-230, 7, (Editors: Bordeaux, L., Hamadi , Y., Kohli, P. and Mateescu, R. ), Cambridge University Press , 2013 (inbook)

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Modelling and Learning Approaches to Image Denoising

Burger, HC.

Eberhard Karls Universität Tübingen, Germany, 2013 (phdthesis)

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Burger, HC. Modelling and Learning Approaches to Image Denoising Eberhard Karls Universität Tübingen, Germany, 2013 (phdthesis)

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Linear mixed models for genome-wide association studies

Lippert, C.

University of Tübingen, Germany, 2013 (phdthesis)

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Lippert, C. Linear mixed models for genome-wide association studies University of Tübingen, Germany, 2013 (phdthesis)

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On the Relations and Differences between Popper Dimension, Exclusion Dimension and VC-Dimension

Seldin, Y., Schölkopf, B.

In Empirical Inference - Festschrift in Honor of Vladimir N. Vapnik, pages: 53-57, 6, (Editors: Schölkopf, B., Luo, Z. and Vovk, V.), Springer, 2013 (inbook)

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Seldin, Y., Schölkopf, B. On the Relations and Differences between Popper Dimension, Exclusion Dimension and VC-Dimension In Empirical Inference - Festschrift in Honor of Vladimir N. Vapnik, pages: 53-57, 6, (Editors: Schölkopf, B., Luo, Z. and Vovk, V.), Springer, 2013 (inbook)

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Modeling and Learning Complex Motor Tasks: A case study on Robot Table Tennis

Mülling, K.

Technical University Darmstadt, Germany, 2013 (phdthesis)

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Mülling, K. Modeling and Learning Complex Motor Tasks: A case study on Robot Table Tennis Technical University Darmstadt, Germany, 2013 (phdthesis)

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Intention Inference and Decision Making with Hierarchical Gaussian Process Dynamics Models

Wang, Z.

Technical University Darmstadt, Germany, 2013 (phdthesis)

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Wang, Z. Intention Inference and Decision Making with Hierarchical Gaussian Process Dynamics Models Technical University Darmstadt, Germany, 2013 (phdthesis)

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2006

Prediction of Protein Function from Networks

Shin, H., Tsuda, K.

In Semi-Supervised Learning, pages: 361-376, Adaptive Computation and Machine Learning, (Editors: Chapelle, O. , B. Schölkopf, A. Zien), MIT Press, Cambridge, MA, USA, November 2006 (inbook)

Abstract

In computational biology, it is common to represent domain knowledge using graphs. Frequently there exist multiple graphs for the same set of nodes, representing information from different sources, and no single graph is sufficient to predict class labels of unlabelled nodes reliably. One way to enhance reliability is to integrate multiple graphs, since individual graphs are partly independent and partly complementary to each other for prediction. In this chapter, we describe an algorithm to assign weights to multiple graphs within graph-based semi-supervised learning. Both predicting class labels and searching for weights for combining multiple graphs are formulated into one convex optimization problem. The graph-combining method is applied to functional class prediction of yeast proteins.When compared with individual graphs, the combined graph with optimized weights performs significantly better than any single graph.When compared with the semidefinite programming-based support vector machine (SDP/SVM), it shows comparable accuracy in a remarkably short time. Compared with a combined graph with equal-valued weights, our method could select important graphs without loss of accuracy, which implies the desirable property of integration with selectivity.

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2006

Shin, H., Tsuda, K. Prediction of Protein Function from Networks In Semi-Supervised Learning, pages: 361-376, Adaptive Computation and Machine Learning, (Editors: Chapelle, O. , B. Schölkopf, A. Zien), MIT Press, Cambridge, MA, USA, November 2006 (inbook)

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Discrete Regularization

Zhou, D., Schölkopf, B.

In Semi-supervised Learning, pages: 237-250, Adaptive computation and machine learning, (Editors: O Chapelle and B Schölkopf and A Zien), MIT Press, Cambridge, MA, USA, November 2006 (inbook)

Abstract

Many real-world machine learning problems are situated on finite discrete sets, including dimensionality reduction, clustering, and transductive inference. A variety of approaches for learning from finite sets has been proposed from different motivations and for different problems. In most of those approaches, a finite set is modeled as a graph, in which the edges encode pairwise relationships among the objects in the set. Consequently many concepts and methods from graph theory are adopted. In particular, the graph Laplacian is widely used. In this chapter we present a systemic framework for learning from a finite set represented as a graph. We develop discrete analogues of a number of differential operators, and then construct a discrete analogue of classical regularization theory based on those discrete differential operators. The graph Laplacian based approaches are special cases of this general discrete regularization framework. An important thing implied in this framework is that we have a wide choices of regularization on graph in addition to the widely-used graph Laplacian based one.

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Zhou, D., Schölkopf, B. Discrete Regularization In Semi-supervised Learning, pages: 237-250, Adaptive computation and machine learning, (Editors: O Chapelle and B Schölkopf and A Zien), MIT Press, Cambridge, MA, USA, November 2006 (inbook)

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Extraction of visual features from natural video data using Slow Feature Analysis

Nickisch, H.

Biologische Kybernetik, Technische Universität Berlin, Berlin, Germany, September 2006 (diplomathesis)

Abstract

Das Forschungsprojekt NeuRoBot hat das un{\"u}berwachte Erlernen einer neuronal inspirierten Steuerungsarchitektur zum Ziel, und zwar unter den Randbedingungen biologischer Plausibilit{\"a}t und der Benutzung einer Kamera als einzigen Sensor. Visuelle Merkmale, die ein angemessenes Abbild der Umgebung liefern, sind unerl{\"a}sslich, um das Ziel kollisionsfreier Navigation zu erreichen. Zeitliche Koh{\"a}renz ist ein neues Lernprinzip, das in der Lage ist, Erkenntnisse aus der Biologie des Sehens zu reproduzieren. Es wird durch die Beobachtung motiviert, dass die Sensoren der Retina auf deutlich k{\"u}rzeren Zeitskalen variieren als eine abstrakte Beschreibung. Zeitliche Langsamkeitsanalyse l{\"o}st das Problem, indem sie zeitlich langsam ver{\"a}nderliche Signale aus schnell ver{\"a}nderlichen Eingabesignalen extrahiert. Eine Verallgemeinerung auf Signale, die nichtlinear von den Eingaben abh{\"a}ngen, ist durch die Anwendung des Kernel-Tricks m{\"o}glich. Das einzig benutzte Vorwissen ist die zeitliche Glattheit der gewonnenen Signale. In der vorliegenden Diplomarbeit wird Langsamkeitsanalyse auf Bildausschnitte von Videos einer Roboterkamera und einer Simulationsumgebung angewendet. Zuallererst werden mittels Parameterexploration und Kreuzvalidierung die langsamst m{\"o}glichen Funktionen bestimmt. Anschließend werden die Merkmalsfunktionen analysiert und einige Ansatzpunkte f{\"u}r ihre Interpretation angegeben. Aufgrund der sehr großen Datens{\"a}tze und der umfangreichen Berechnungen behandelt ein Großteil dieser Arbeit auch Aufwandsbetrachtungen und Fragen der effizienten Berechnung. Kantendetektoren in verschiedenen Phasen und mit haupts{\"a}chlich horizontaler Orientierung stellen die wichtigsten aus der Analyse hervorgehenden Funktionen dar. Eine Anwendung auf konkrete Navigationsaufgaben des Roboters konnte bisher nicht erreicht werden. Eine visuelle Interpretation der erlernten Merkmale ist jedoch durchaus gegeben.

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Nickisch, H. Extraction of visual features from natural video data using Slow Feature Analysis Biologische Kybernetik, Technische Universität Berlin, Berlin, Germany, September 2006 (diplomathesis)

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An Online-Computation Approach to Optimal Finite-Horizon State-Feedback Control of Nonlinear Stochastic Systems

Deisenroth, MP.

Biologische Kybernetik, Universität Karlsruhe (TH), Karlsruhe, Germany, August 2006 (diplomathesis)

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Deisenroth, MP. An Online-Computation Approach to Optimal Finite-Horizon State-Feedback Control of Nonlinear Stochastic Systems Biologische Kybernetik, Universität Karlsruhe (TH), Karlsruhe, Germany, August 2006 (diplomathesis)

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Object Classification using Local Image Features

Nowozin, S.

Biologische Kybernetik, Technical University of Berlin, Berlin, Germany, May 2006 (diplomathesis)

Abstract

Object classification in digital images remains one of the most challenging tasks in computer vision. Advances in the last decade have produced methods to repeatably extract and describe characteristic local features in natural images. In order to apply machine learning techniques in computer vision systems, a representation based on these features is needed. A set of local features is the most popular representation and often used in conjunction with Support Vector Machines for classification problems. In this work, we examine current approaches based on set representations and identify their shortcomings. To overcome these shortcomings, we argue for extending the set representation into a graph representation, encoding more relevant information. Attributes associated with the edges of the graph encode the geometric relationships between individual features by making use of the meta data of each feature, such as the position, scale, orientation and shape of the feature region. At the same time all invariances provided by the original feature extraction method are retained. To validate the novel approach, we use a standard subset of the ETH-80 classification benchmark.

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Nowozin, S. Object Classification using Local Image Features Biologische Kybernetik, Technical University of Berlin, Berlin, Germany, May 2006 (diplomathesis)

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Kernel PCA for Image Compression

Huhle, B.

Biologische Kybernetik, Eberhard-Karls-Universität, Tübingen, Germany, April 2006 (diplomathesis)

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Huhle, B. Kernel PCA for Image Compression Biologische Kybernetik, Eberhard-Karls-Universität, Tübingen, Germany, April 2006 (diplomathesis)

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Gaussian Process Models for Robust Regression, Classification, and Reinforcement Learning

Kuss, M.

Biologische Kybernetik, Technische Universität Darmstadt, Darmstadt, Germany, March 2006, passed with distinction, published online (phdthesis)

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Kuss, M. Gaussian Process Models for Robust Regression, Classification, and Reinforcement Learning Biologische Kybernetik, Technische Universität Darmstadt, Darmstadt, Germany, March 2006, passed with distinction, published online (phdthesis)

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Semigroups applied to transport and queueing processes

Radl, A.

Biologische Kybernetik, Eberhard Karls Universität, Tübingen, 2006 (phdthesis)

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Radl, A. Semigroups applied to transport and queueing processes Biologische Kybernetik, Eberhard Karls Universität, Tübingen, 2006 (phdthesis)

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Local Alignment Kernels for Protein Homology Detection

Saigo, H.

Biologische Kybernetik, Kyoto University, Kyoto, Japan, 2006 (phdthesis)

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Saigo, H. Local Alignment Kernels for Protein Homology Detection Biologische Kybernetik, Kyoto University, Kyoto, Japan, 2006 (phdthesis)

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Combining a Filter Method with SVMs

Lal, T., Chapelle, O., Schölkopf, B.

In Feature Extraction: Foundations and Applications, Studies in Fuzziness and Soft Computing, Vol. 207, pages: 439-446, Studies in Fuzziness and Soft Computing ; 207, (Editors: I Guyon and M Nikravesh and S Gunn and LA Zadeh), Springer, Berlin, Germany, 2006 (inbook)

Abstract

Our goal for the competition (feature selection competition NIPS 2003) was to evaluate the usefulness of simple machine learning techniques. We decided to use the correlation criteria as a feature selection method and Support Vector Machines for the classification part. Here we explain how we chose the regularization parameter C of the SVM, how we determined the kernel parameter and how we estimated the number of features used for each data set. All analyzes were carried out on the training sets of the competition data. We choose the data set Arcene as an example to explain the approach step by step. In our view the point of this competition was the construction of a well performing classifier rather than the systematic analysis of a specific approach. This is why our search for the best classifier was only guided by the described methods and that we deviated from the road map at several occasions. All calculations were done with the software Spider [2004].

PDF DOI [BibTex]

Lal, T., Chapelle, O., Schölkopf, B. Combining a Filter Method with SVMs In Feature Extraction: Foundations and Applications, Studies in Fuzziness and Soft Computing, Vol. 207, pages: 439-446, Studies in Fuzziness and Soft Computing ; 207, (Editors: I Guyon and M Nikravesh and S Gunn and LA Zadeh), Springer, Berlin, Germany, 2006 (inbook)

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Embedded methods

Lal, T., Chapelle, O., Weston, J., Elisseeff, A.

In Feature Extraction: Foundations and Applications, pages: 137-165, Studies in Fuzziness and Soft Computing ; 207, (Editors: Guyon, I. , S. Gunn, M. Nikravesh, L. A. Zadeh), Springer, Berlin, Germany, 2006 (inbook)

Abstract

Embedded methods are a relatively new approach to feature selection. Unlike filter methods, which do not incorporate learning, and wrapper approaches, which can be used with arbitrary classifiers, in embedded methods the features selection part can not be separated from the learning part. Existing embedded methods are reviewed based on a unifying mathematical framework.

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Lal, T., Chapelle, O., Weston, J., Elisseeff, A. Embedded methods In Feature Extraction: Foundations and Applications, pages: 137-165, Studies in Fuzziness and Soft Computing ; 207, (Editors: Guyon, I. , S. Gunn, M. Nikravesh, L. A. Zadeh), Springer, Berlin, Germany, 2006 (inbook)

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2004

Independent component analysis and beyond

Harmeling, S.

Biologische Kybernetik, Universität Potsdam, Potsdam, October 2004 (phdthesis)

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2004

Harmeling, S. Independent component analysis and beyond Biologische Kybernetik, Universität Potsdam, Potsdam, October 2004 (phdthesis)

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Analysis of differential gene expression in healthy and osteoarthritic cartilage and isolated chondrocytes by microarray analysis

Aigner, T., Saas, J., Zien, A., Zimmer, R., Gebhard, P., Knorr, T.

In Volume 1: Cellular and Molecular Tools, pages: 109-128, (Editors: Sabatini, M., P. Pastoureau and F. De Ceuninck), Humana Press, July 2004 (inbook)

Abstract

The regulation of chondrocytes in osteoarthritic cartilage and the expression of specific gene products by these cells during early-onset and late-stage osteoarthritis are not well characterized. With the introduction of cDNA array technology, the measurement of thousands of different genes in one small tissue sample can be carried out. Interpretation of gene expression analyses in articular cartilage is aided by the fact that this tissue contains only one cell type in both normal and diseased conditions. However, care has to be taken not to over- and misinterpret results, and some major challenges must be overcome in order to utilize the potential of this technology properly in the field of osteoarthritis.

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Aigner, T., Saas, J., Zien, A., Zimmer, R., Gebhard, P., Knorr, T. Analysis of differential gene expression in healthy and osteoarthritic cartilage and isolated chondrocytes by microarray analysis In Volume 1: Cellular and Molecular Tools, pages: 109-128, (Editors: Sabatini, M., P. Pastoureau and F. De Ceuninck), Humana Press, July 2004 (inbook)

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Distributed Command Execution

Stark, S., Berlin, M.

In BSD Hacks: 100 industrial-strength tips & tools, pages: 152-152, (Editors: Lavigne, Dru), O’Reilly, Beijing, May 2004 (inbook)

Abstract

Often you want to execute a command not only on one computer, but on several at once. For example, you might want to report the current statistics on a group of managed servers or update all of your web servers at once.

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Stark, S., Berlin, M. Distributed Command Execution In BSD Hacks: 100 industrial-strength tips & tools, pages: 152-152, (Editors: Lavigne, Dru), O’Reilly, Beijing, May 2004 (inbook)

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Exploration of combining Echo-State Network Learning with Recurrent Neural Network Learning techniques

Erhan, D.

Biologische Kybernetik, International University Bremen, Bremen, Germany, May 2004 (diplomathesis)

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Erhan, D. Exploration of combining Echo-State Network Learning with Recurrent Neural Network Learning techniques Biologische Kybernetik, International University Bremen, Bremen, Germany, May 2004 (diplomathesis)

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Computational Analysis of Gene Expression Data

Zien, A.

(4), Biologische Kybernetik, March 2004 (phdthesis)

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Zien, A. Computational Analysis of Gene Expression Data (4), Biologische Kybernetik, March 2004 (phdthesis)

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Local Alignment Kernels for Biological Sequences

Vert, J., Saigo, H., Akutsu, T.

In Kernel Methods in Computational Biology, pages: 131-153, MIT Press, Cambridge, MA,, 2004 (inbook)

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Vert, J., Saigo, H., Akutsu, T. Local Alignment Kernels for Biological Sequences In Kernel Methods in Computational Biology, pages: 131-153, MIT Press, Cambridge, MA,, 2004 (inbook)

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Gaussian Processes in Machine Learning

Rasmussen, CE.

In 3176, pages: 63-71, Lecture Notes in Computer Science, (Editors: Bousquet, O., U. von Luxburg and G. Rätsch), Springer, Heidelberg, 2004, Copyright by Springer (inbook)

Abstract

We give a basic introduction to Gaussian Process regression models. We focus on understanding the role of the stochastic process and how it is used to define a distribution over functions. We present the simple equations for incorporating training data and examine how to learn the hyperparameters using the marginal likelihood. We explain the practical advantages of Gaussian Process and end with conclusions and a look at the current trends in GP work.

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Rasmussen, CE. Gaussian Processes in Machine Learning In 3176, pages: 63-71, Lecture Notes in Computer Science, (Editors: Bousquet, O., U. von Luxburg and G. Rätsch), Springer, Heidelberg, 2004, Copyright by Springer (inbook)

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The p53 Oligomerization Domain: Sequence-Structure Relationships and the Design and Characterization of Altered Oligomeric States

Davison, TS.

University of Toronto, Canada, University of Toronto, Canada, 2004 (phdthesis)

[BibTex]

Davison, TS. The p53 Oligomerization Domain: Sequence-Structure Relationships and the Design and Characterization of Altered Oligomeric States University of Toronto, Canada, University of Toronto, Canada, 2004 (phdthesis)

[BibTex]

Protein Classification via Kernel Matrix Completion

Kin, T., Kato, T., Tsuda, K.

In pages: 261-274, (Editors: Schoelkopf, B., K. Tsuda and J.P. Vert), MIT Press, Cambridge, MA; USA, 2004 (inbook)

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Kin, T., Kato, T., Tsuda, K. Protein Classification via Kernel Matrix Completion In pages: 261-274, (Editors: Schoelkopf, B., K. Tsuda and J.P. Vert), MIT Press, Cambridge, MA; USA, 2004 (inbook)

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Statistical Learning with Similarity and Dissimilarity Functions

von Luxburg, U.

pages: 1-166, Technische Universität Berlin, Germany, Technische Universität Berlin, Germany, 2004 (phdthesis)

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von Luxburg, U. Statistical Learning with Similarity and Dissimilarity Functions pages: 1-166, Technische Universität Berlin, Germany, Technische Universität Berlin, Germany, 2004 (phdthesis)

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Introduction to Statistical Learning Theory

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

In Lecture Notes in Artificial Intelligence 3176, pages: 169-207, (Editors: Bousquet, O., U. von Luxburg and G. Rätsch), Springer, Heidelberg, Germany, 2004 (inbook)

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Bousquet, O., Boucheron, S., Lugosi, G. Introduction to Statistical Learning Theory In Lecture Notes in Artificial Intelligence 3176, pages: 169-207, (Editors: Bousquet, O., U. von Luxburg and G. Rätsch), Springer, Heidelberg, Germany, 2004 (inbook)

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A Primer on Kernel Methods

Vert, J., Tsuda, K., Schölkopf, B.

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

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

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Classification and Feature Extraction in Man and Machine

Graf, AAB.

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

[BibTex]

Graf, AAB. Classification and Feature Extraction in Man and Machine Biologische Kybernetik, University of Tübingen, Germany, 2004, online publication (phdthesis)

[BibTex]

Concentration Inequalities

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

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

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

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Kernels for graphs

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

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

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Kashima, H., Tsuda, K., Inokuchi, A. Kernels for graphs In pages: 155-170, (Editors: Schoelkopf, B., K. Tsuda and J.P. Vert), MIT Press, Cambridge, MA; USA, 2004 (inbook)

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A primer on molecular biology

Zien, A.

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

Abstract

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

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

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2003

Real-Time Face Detection

Kienzle, W.

Biologische Kybernetik, Eberhard-Karls-Universitaet Tuebingen, Tuebingen, Germany, October 2003 (diplomathesis)

[BibTex]

2003

Kienzle, W. Real-Time Face Detection Biologische Kybernetik, Eberhard-Karls-Universitaet Tuebingen, Tuebingen, Germany, October 2003 (diplomathesis)

[BibTex]

Ladungsträgerdynamik in optisch angeregten GaAs-Quantendrähten:Relaxation und Transport

Pfingsten, T.

Biologische Kybernetik, Institut für Festkörpertheorie, WWU Münster, June 2003 (diplomathesis)

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Pfingsten, T. Ladungsträgerdynamik in optisch angeregten GaAs-Quantendrähten:Relaxation und Transport Biologische Kybernetik, Institut für Festkörpertheorie, WWU Münster, June 2003 (diplomathesis)

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