Computational Methods in Systems Biology : International Conference CMSB 2004, Paris, France, May 26-28, 2004, Revised Selected Papers / edited by Vincent Danos, Vincent Schachter.

Format:

Book

Contributor:

Danos, Vincent, editor.

Schachter, Vincent, editor.

SpringerLink (Online service)

Series:

Computer Science (Springer-11645)

Lecture notes in computer science. Lecture notes in bioinformatics ; 3082.

Lecture Notes in Bioinformatics ; 3082

Language:

English

Subjects (All):

Computer simulation.

Bioinformatics.

Computational biology.

Software engineering.

Database management.

Computers.

Simulation and Modeling.

Computer Appl. in Life Sciences.

Software Engineering.

Database Management.

Computation by Abstract Devices.

Local Subjects:

Simulation and Modeling.

Bioinformatics.

Computer Appl. in Life Sciences.

Software Engineering.

Database Management.

Computation by Abstract Devices.

Physical Description:

1 online resource (X, 282 pages).

Edition:

First edition 2005.

Contained In:

Springer eBooks

Place of Publication:

Berlin, Heidelberg : Springer Berlin Heidelberg : Imprint: Springer, 2005.

System Details:

text file PDF

Summary:

The Computational Methods in Systems Biology (CMSB) workshop series was established in 2003 by Corrado Priami. The purpose of the workshop series is to help catalyze the convergence between computer scientists interested in language design, concurrency theory, software engineering or program verification, and physicists, mathematicians and biologists interested in the systems-level understanding of cellular processes. Systems biology was perceived as being increasingly in search of sophisticated modeling frameworks whether for representing and processing syst- level dynamics or for model analysis, comparison and refinement. One has here a clear-cut case of a must-explore field of application for the formal methods developed in computer science in the last decade. This proceedings consists of papers from the CMSB 2003 workshop. A good third of the 24 papers published here have a distinct formal methods origin; we take this as a confirmation that a synergy is building that will help solidify CMSB as a forum for cross-community exchange, thereby opening new theoretical avenues and making the field less of a potential application and more of a real one. Publication in Springer's new Lecture Notes in Bioinformatics (LNBI) offers particular visibility and impact, which we gratefully acknowledge. Our keynote speakers, Alfonso Valencia and Trey Ideker, gave challenging and somewhat humbling lectures: they made it clear that strong applications to systems biology are still some way ahead. We thank them all the more for accepting the invitation to speak and for the clarity and excitement they brought to the conference.

Contents:

Long Papers

An Explicit Upper Bound for the Approximation Ratio of the Maximum Gene Regulatory Network Problem

Autonomous Mobile Robot Control Based on White Blood Cell Chemotaxis

Beta Binders for Biological Interactions

Biomimetic in Silico Devices

Building and Analysing an Integrative Model of HIV-1 RNA Alternative Splicing

Graph-Based Modeling of Biological Regulatory Networks: Introduction of Singular States

IMGT-Choreography: Processing of Complex Immunogenetics Knowledge

Model Checking Biological Systems Described Using Ambient Calculus

Modeling the Molecular Network Controlling Adhesion Between Human Endothelial Cells: Inference and Simulation Using Constraint Logic Programming

Modelling Metabolic Pathways Using Stochastic Logic Programs-Based Ensemble Methods

Projective Brane Calculus

Residual Bootstrapping and Median Filtering for Robust Estimation of Gene Networks from Microarray Data

Spatial Modeling and Simulation of Diffusion in Nuclei of Living Cells

The Biochemical Abstract Machine BIOCHAM

Towards Reusing Model Components in Systems Biology

VICE: A VIrtual CEll

Short Papers

Biological Domain Identification Based in Codon Usage by Means of Rule and Tree Induction

Black Box Checking for Biochemical Networks

CMBSlib: A Library for Comparing Formalisms and Models of Biological Systems

Combining State-Based and Scenario-Based Approaches in Modeling Biological Systems

Developing SBML Beyond Level 2: Proposals for Development

General Stochastic Hybrid Method for the Simulation of Chemical Reaction Processes in Cells

The Biodegradation Network, a New Scenario for Computational Systems Biology Research

Invited Contributions

Brane Calculi.

Other Format:

Printed edition:

ISBN:

978-3-540-25974-9

9783540259749

Access Restriction:

Restricted for use by site license.