PASCAL - Pattern Analysis, Statistical Modelling and Computational Learning

EPrints submitted by Jean-Philippe Vert

Click here to see user's record.

Number of EPrints submitted by this user: 44

Semigroup kernels on measures
Marco Cuturi, Kenji Fukumizu and Jean-Philippe Vert
Journal of Machine Learning Research Volume 6, pp. 1169-1198, 2005.

A novel representation of protein sequences for prediction of subcellular location using support vector machines
Setsuro Matsuda, Jean-Philippe Vert, Hiroto Saigo, Nobuhisa Ueda, Hiroyuki Toh and Tatsuya Akutsu
Protein Science Volume 14, pp. 2804-2813, 2005.

Kernel methods in genomics and computational biology
Jean-Philippe Vert
(2005) Technical Report. CNRS-HAL.

Kernels for gene regulatory regions
Jean-Philippe Vert, Robert Thurman and William S. Noble
In: NIPS 2005, 5-8 Dec 2005, Vancouver, Canada.

Consistency and convergence rates of one-class SVM and related algorithms
Regis Vert and Jean-Philippe Vert
In: NIPS 2005, Dec 5-8, 2005, Vancouver, Canada.

Consistency and convergence rates of one-class SVM and related algorithms
Regis Vert and Jean-Philippe Vert
(2005) Technical Report. Université Paris Sud, Orsay, France.

Supervised enzyme network inference from the integration of genomic data and chemical information
Yoshihiro Yamanishi, Jean-Philippe Vert and Minoru Kanehisa
Bioinformatics Volume 21, i468-i477, 2005.

Graph kernels for molecular structure-activity relationship analysis with support vector machines
Pierre Mahé, Nobuhisa Ueda, Tatsuya Akutsu, Jean-Luc Perret and Jean-Philippe Vert
Journal of Chemical Information and Modeling Volume 45, Number 4, pp. 939-951, 2005.

The context-tree kernel for strings
Marco Cuturi and Jean-Philippe Vert
Neural Networks Volume 18, Number 4, pp. 1111-1123, 2005.

Semigroup kernels on measures
Marco Cuturi, Kenji Fukumizu and Jean-Philippe Vert
Journal of Machine Learning Research Volume 6, pp. 1169-1198, 2005.

Kernel methods in computational biology
Jean-Philippe Vert
(2004) Other thesis, Université Paris 6.

Semigroup kernels on finite sets
Marco Cuturi and Jean-Philippe Vert
In: Advances in Neural Information Processing Systems (2005) MIT Press , Cambridge, MA , pp. 329-336.

Supervised graph inference
Jean-Philippe Vert and Yoshihiro Yamanishi
In: Advances in Neural Information Processing Systems (2005) MIT Press , Cambridge, MA , pp. 1433-1440.

Optimizing amino acid substitution matrices with a local alignment kernel
Hiroto Saigo, Jean-Philippe Vert and Tatsuya Akutsu
BMC Bioinformatics Volume 7, 246, 2006.

Consistency and convergence rates of one-class SVMs and related algorithms
Regis Vert and Jean-Philippe Vert
Journal of Machine Learning Research Volume 7, pp. 817-854, 2006.

The pharmacophore kernel for virtual screening with support vector machines
Pierre Mahé, Liva Ralaivola, Véronique Stoven and Jean-Philippe Vert
Journal of Chemical Information and Modeling Volume 46, Number 5, pp. 2003-2014, 2006.

Classification of biological sequences with kernel methods
Jean-Philippe Vert
In: ICGI 2006, 20-22 Sep 2006, Tokyo, Japan.

An accurate and interpretable model for siRNA efficacy prediction
Jean-Philippe Vert, Nicolas Foveau, Christian Lajaunie and Yves Vandenbrouck
BMC Bioinformatics Volume 7, Number 520, 2006.

Classification of microarray data using gene networks
Franck Rapaport, Andrei Zinovyev, Marie Dutreix, Emmanuel Barillot and Jean-Philippe Vert
BMC Bioinformatics Volume 8, Number 35, 2007.

Kernel methods in genomics and computational biology
Jean-Philippe Vert
In: Kernel Methods in Bioengineering, Signal and Image Processing (2007) Idea Group , pp. 42-63. ISBN 1599040433

An alignment kernel for protein structures
Jian Qiu, Martial Hue, Asa Ben-Hur, Jean-Philippe Vert and William Noble
Bioinformatics Volume 23, Number 9, pp. 1090-1098, 2007.

Glycan classification with tree kernels
Yoshihiro Yamanishi, Francis Bach and Jean-Philippe Vert
Bioinformatics Volume 23, Number 10, pp. 1211-1216, 2007.

A Kernel for Time Series Based on Global Alignments
Marco Cuturi, Jean-Philippe Vert, Oysten Birkenes and Tomoko Matsui
In: Proceedings of the IEEE International Conference on Acoustics, Speech and Signal Processing 2007, ICASSP 2007 (2007) IEEE , II-413-II-416. ISBN 1-4244-0728-1

Supervised Reconstruction of Biological Networks with Local Models
Kevin Bleakley, Gérard Biau and Jean-Philippe Vert
Bioinformatics Volume 23, Number 13, i57-i65, 2007.

A new pairwise kernel for biological network inference with support vector machines
Jean-Philippe Vert, Jian Qiu and William Noble
BMC Bioinformatics Volume 8 (Suppl. 10), Number 10, 2007.

Eliciting Consumer Preferences using Robust Adaptive Choice Questionnaires
Jacob Abernethy, Theodoros Evgeniou, Olivier Toubia and Jean-Philippe Vert
IEEE Transactions on Knowledge and Data Engineering Volume 20, Number 2, pp. 145-155, 2008.

Efficient peptide-MHC-I binding prediction for alleles with few known binders
Laurent Jacob and Jean-Philippe Vert
Bioinformatics Volume 24, Number 3, pp. 358-366, 2008.

Classification of arrayCGH data using fused SVM
Franck Rapaport, Emmanuel Barillot and Jean-Philippe Vert
Bioinformatics Volume 24, Number 13, i375-i382, 2008.

A path following algorithm for graph matching
Mikhail Zaslavskiy, Francis Bach and Jean-Philippe Vert
In: Proceedings of the 3rd International Conference on Image and Signal Processing (ICISP 2008) Lecture Notes in Computer Science (5099). (2008) Springer , Berlin Heidelbert , pp. 329-337. ISBN 978-3-540-69904-0

SIRENE: Supervised Inference of REgulatory NEtworks
Fantine Mordelet and Jean-Philippe Vert
Bioinformatics Volume 24, Number 16, i76-i82, 2008.

Machine learning for in silico virtual screening and chemical genomics: new strategies
Laurent Jacob and Jean-Philippe Vert
Combinatorial Chemistry & High Throughput Screening Volume 11, Number 8, pp. 677-685, 2008.

Virtual screening of GPCRs: an in silico chemogenomics approach
Laurent Jacob, Brice Hoffmann, Véronique Stoven and Jean-Philippe Vert
BMC Bioinformatics Volume 9, 363, 2008.

Protein-ligand interaction prediction: an improved chemogenomics approach
Laurent Jacob and Jean-Philippe Vert
Bioinformatics Volume 24, Number 19, pp. 2149-2156, 2008.

Graph kernels based on tree patterns for molecules
Pierre Mahé and Jean-Philippe Vert
Machine Learning Volume 75, Number 1, pp. 3-35, 2009.

A new approach to collaborative filtering: operator estimation with spectral regularization
Jacob Abernethy, Francis Bach, Theodoros Evgeniou and Jean-Philippe Vert
Journal of Machine Learning Research Volume 10, pp. 803-826, 2009.

Clustered Multi-Task Learning: A Convex Formulation
Laurent Jacob, Francis Bach and Jean-Philippe Vert
In: Advances in Neural Information Processing Systems (2009) MIT Press , pp. 745-752.

A path following algorithm for the graph matching problem
mikhail zaslavskiy, Francis Bach and Jean-Philippe Vert
IEEE Transactions on Pattern Analysis and Machine Intelligence Volume 31, Number 12, pp. 2227-2242, 2009.

Virtual screening with support vector machines and structure kernels
Pierre Mahé and Jean-Philippe Vert
Combinatorial Chemistry & High Throughput Screening Volume 12, Number 4, pp. 409-423, 2009.

High-level feature extraction using SVM with walk-based graph kernel
Jean-Philippe Vert, Tomoko Matsui, Shin'ichi Satoh and Yuji Uchiyama
In: Proceedings of the IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP 2009). (2009) IEEE Computer Society , Washington, DC, USA , pp. 1121-1124. ISBN 978-1-4244-2353-8

Reconstruction of biological networks by supervised machine learning approaches
Jean-Philippe Vert
In: Elements of Computational Systems Biology (2009) Wiley .

Global alignment of protein-protein interaction networks by graph matching methods
mikhail zaslavskiy, Francis Bach and Jean-Philippe Vert
Bioinformatics Volume 25, Number 12, i259-i267, 2009.

Group Lasso with Overlaps and Graph Lasso
laurent jacob, Guillaume Obozinski and Jean-Philippe Vert
In: Proceedings of the 26th Annual International Conference on Machine Learning ACM International Conference Proceeding Series , 382 . (2009) ACM , pp. 433-440.

White Functionals for Anomaly Detection in Dynamical Systems
Marco Cuturi, Jean-Philippe Vert and Alexandre D'Aspremont
In: Advances in Neural Information Processing Systems (2009) NIPS , pp. 432-440.

A new protein binding pocket similarity measure based on comparison of clouds of atoms in 3D: application to ligand prediction
brice hoffmann, mikhail zaslavskiy, Jean-Philippe Vert and Véronique Stoven
BMC Bioinformatics Volume 11, 99, 2010.