[Socbin] Call for papers - Machine Learning in Systems Biology, Edinburgh 2010
Simon Rogers
srogers at dcs.gla.ac.uk
Wed Jun 16 17:06:52 CEST 2010
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************************** Call for Papers
*****************************
MLSB 2010
The Fourth International Workshop on Machine Learning in Systems
Biology
15-16 October 2010, Edinburgh, Scotland
***********************************************************************
http://mlsb10.ijs.si/
MOTIVATION
Molecular biology and 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, the amount of available
experimental
data is not a limiting factor any more; on the contrary, there
is a
plethora of it. Given the research question, the challenge has
shifted towards identifying the relevant pieces of information
and
making sense out of it (a "data mining" issue). Second, rather
than focus on components in isolation, we can now try to
understand
how biological systems behave as a 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 in the biomedical sciences in general.
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.
The Workshop is organized as "core - event" of Pattern Analysis,
Statistical Modelling and Computational Learning - Network of
Excellence
2 (PASCAL 2, http://www.pascal-network.org/)
OBJECTIVE
The aim of this workshop is to contribute to the
cross-fertilization
between the research in machine learning methods and their
applications to systems biology (i.e., 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.
LOCATION AND CO-LOCATION
The workshop will take place 15-16 October 2010 at the Edinburgh
International Conference Centre and the Informatics Forum of the
University of Edinburgh. It will be part of the wokshop program
of
ICSB 2010, The 11th International Conference on Systems Biology
(11-14 OCT 2010, http://www.icsb2010.org.uk/).
SUBMISSIONS INSTRUCTIONS
We invite you to submit an extended abstract of up to 4 pages
describing new or recently published (2010) results, formatted
according to the Springer Lecture Notes in Computer Science
style. Each extended abstract must be submitted online via the
Easychair
submission system:
http://www.easychair.org/conferences/?conf=mlsb10
The extended abstracts will be reviewed by the scientific
programme
committee. They will be selected for oral or poster presentation
according to their originality and relevance to the workshop
topics.
Electronic versions of the extended abstracts will be accessible
to the
participants prior to the conference, distributed in hardcopy
form to
participants at the conference, and will be made publicly
available
on the conference web site after the conference. However, the
book of abstracts will not be published and the extended
abstracts
will not constitute a formal publication.
We expect that authors of selected contributions will be invited
to
submit full papers to special issues of high-ranking
Machine Learning/Systems Biology journals.
KEY DATES
15 May: Submission site open
25 June: deadline for submission of extended abstracts
25 July: notification of acceptance
15-16 October: workshop
TOPICS
A non-exhaustive list of topics suitable for this workshop is
given
below:
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
Semi-supervised learning
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 function and structure prediction
Protein-protein interaction networks
Synthetic biology
INVITED SPEAKERS (confirmed)
Florence d'Alche Buc, Universite d'Evry-Val d'Essonne, Evry,
France
Nir Friedman, The Hebrew University of Jerusalem, Jerusalem,
Israel
Ursula Kummer, BIOQUANT, University of Heidelberg, Germany
Hans Lehrach, Max Planck Institute for Molecular Genetics,
Berlin, Germany
Vebjorn Ljosa, The Broad Institute of MIT and Harvard, USA
MLSB10 PROGRAM CHAIRS
Saöo Dûeroski, Jozef Stefan Institute, Ljubljana, Slovenia
Simon Rogers, University of Glasgow, UK
Guido Sanguinetti, University of Sheffield/University of
Edinburgh, UK
SCIENTIFIC PROGRAM COMMITTEE (tentative)
Florence d'AlchÈ-Buc, University of Evry, France
Paolo Frasconi, Universit‡ degli Studi di Firenze, Italy
Cesare Furlanello, Fondazione Bruno Kessler, Trento, Italy
Pierre Geurts, University of LiËge, Belgium
Mark Girolami, University of Glasgow, UK
Dirk Husmeier, Biomathematics & Statistics Scotland, UK
Samuel Kaski, Helsinki University of Technology, Finland
Ross D. King, Aberystwyth University, UK
Neil Lawrence, University of Manchester, UK
Elena Marchiori, Vrije Universiteit Amsterdam, The Netherlands
Yves Moreau, Katholieke Universiteit Leuven, Belgium
William Stafford Noble, University of Washington, USA
Gunnar R‰tsch, FML, Max Planck Society, T¸bingen
Juho Rousu, University of Helsinki, Finland
CÈline Rouveirol, University of Paris XIII, France
Yvan Saeys, University of Gent, Belgium
Ljupco Todorovski, University of Ljubljana, Slovenia
Koji Tsuda, Max Planck Institute, Tuebingen
Jean-Philippe Vert, Ecole des Mines, France
Louis Wehenkel, University of LiËge, Belgium
Jean-Daniel Zucker, University of Paris XIII, France
Blaz Zupan, University of Ljubljana, Slovenia
LOCAL ORGANIZATION
Fiona Clark, University of Edinburgh, UK
Dragi Kocev, Jozef Stefan Institute, Ljubljana, Slovenia
(webmaster)
--
Dr Simon Rogers
Lecturer in Inference
Department of Computing Science
University of Glasgow
srogers at dcs.gla.ac.uk<mailto:srogers at dcs.gla.ac.uk>
skype: sdrogersskype
________________________________
The University of Glasgow, charity number SC004401
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