** Our apologies if you receive multiple copies of this announcement ** SUBMISSION DEADLINE HAS BEEN EXTENDED TO JULY 6TH. **************************** Call for Papers *************************** International Workshop on Machine Learning in Systems Biology 24-25 September 2007, Evry (near Paris), France ************************************************************************ http://mlsb07.ibisc.fr Motivation Molecular biology and also all the biomedical sciences are undergoing a true revolution as a result of the emergence and growing impact of a series of new disciplines/tools sharing the “-omics” suffix in their name. These include in particular genomics, transcriptomics, proteomics and metabolomics devoted respectively to the examination of the entire systems of genes, transcripts, proteins and metabolites present in a given cell or tissue type. The availability of these new, highly effective tools for biological exploration is dramatically changing the way one performs research in at least two respects. First of all, the amount of available experimental data is not at all a limiting factor any more; on the contrary, there is a plethora of it. The challenge has shifted towards identifying the relevant pieces of information given the question, and how to make sense out of it (a “data mining” issue). Secondly, rather than to focus on components in isolation, we can now try to understand how biological systems behave as the result of the integration and interaction between the individual components that one can now monitor simultaneously (so called “systems biology”). Taking advantage of this wealth of “genomic” information has become a conditio sine qua non for whoever ambitions to remain competitive in molecular biology and more generally in biomedical sciences. Machine learning naturally appears as one of the main drivers of progress in this context, where most of the targets of interest deal with complex structured objects: sequences, 2D and 3D structures or interaction networks. At the same time bioinformatics and systems biology have already induced significant new developments of general interest in machine learning, for example in the context of learning with structured data, graph inference, semi-supervised learning, system identification, and novel combinations of optimization and learning algorithms. Objective The aim of this workshop is to contribute to the cross-fertilization between the research in machine learning methods and their applications to complex biological and medical questions by bringing together method developers and experimentalists. We encourage submissions bringing forward methods for discovering complex structures (e.g. interaction networks, molecule structures) and methods supporting genome-wide data analysis. A non-exhaustive list of topics suitable for this workshop: Methods Machine Learning Algorithms Bayesian Methods Data integration/fusion Feature/subspace selection Clustering Biclustering/association rules Kernel Methods Probabilistic Inference Structured output prediction Systems identification Graph inference, completion, smoothing Applications Sequence Annotation Gene Expression and post-transcriptional regulation Inference of gene regulation networks Gene Prediction and whole genome association studies Metabolic pathway modeling Signaling networks Systems biology approaches to biomarker identification Rational drug design methods Metabolic Reconstruction Protein Structure Prediction Protein Function Prediction Protein-protein interaction networks Submissions We invite to submit an extended abstract of maximum five pages, formatted according to the Springer Lecture Notes in Computer Science style. Papers should be submitted online via the Easychair submission system at http://www.easychair.org/MLSB07/. The deadline for submissions is *July 6* (Extended) The accepted submissions will be edited in the proceedings of the workshop. Further information concerning the workshop can be found on the workshop web site http://mlsb07.ibisc.fr Important dates - 6 July: deadline for submissions - 24 July: response to authors - 25 August: camera-ready papers (extended abstracts) - 24-25 September: workshop Location The workshop will take place at University of Evry,in the Genopole® campus, located in Evry, at the heart of the Ile-de-France region, 25 km south of Paris. Evry has many transportation infrastructures (A6 and Francilienne highways, two RER regional train lines making it possible to reach the center of Paris in 40 minutes) and the Orly and Charles-de-Gaulle airports (15 km and 70 km away respectively). Chairs : Florence d’Alché-Buc, IBISC CNRS FRE 2873 & Université d’Evry, France Louis Wehenkel, GIGA & Université de Liège, Belgique Programme Committee Florence d’Alché-Buc (University of Evry, France) Christophe Ambroise (University of Evry, France) Laurent Bréhelin (University of Montpellier, France) Vincent Frouin (CEA, France) Pierre Geurts (University of Liège, Belgium) Mark Girolami (University of Glasgow, UK) Samuel Kaski (University of Helsinki, Finland) Kathleen Marchal (Katholieke Universiteit Leuven, Belgium) Gunnar Raetsch (Max Planck Institute,Tuebingen) Juho Rousu (University of Helsinki, Finland) Céline Rouveirol (University of Paris XIII, France) Yvan Saeys (University of Gent, Belgium) Koji Tsuda (Max Planck Institute, Tuebingen) Jacques Van Helden (Université Libre de Bruxelles, Belgium) Jean-Philippe Vert (Ecole des Mines, France) Louis Wehenkel (University of Liège, Belgium) Jean-Daniel Zucker(University of Paris XIII, France)