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Description

Multicellular systems biology is an emerging field aiming at a mechanistic understanding of developmental, physiological and pathological processes by studying the multiscale interactions at the subcellular, cellular and tissue levels. Increasingly, computational simulation is needed to explore and predict a system’s behavior and to integrate quantitative data.

Recently, a number of dedicated modeling and simulation platforms have become available that facilitate the construction and simulation of multiscale models of multicellular systems. It is therefore time for a comprehensive overview and comparison of challenges and approaches of the different modeling platforms in multicellular systems biology.

This mini-symposium, colocated at the ECMTB in Gothenburg, presents the state-of-the-art in computational methods for multicellular systems biology. It brings together developers and users of this software to identify common approaches and future challenges concerning multiscale integration, model specification, model exchange, scalability, workflow management as well as compliance to standards and guidelines. The session thus aims to provide an overview of the available modeling and simulation platforms and accelerate innovation in the field of computational multicellular systems biology.

Chaste CompuCell3D Morpheus VirtualLeaf

Organizers

Abstracts

We have compiled a book of abstracts for this minisymposium.

Speakers

Platform Speaker / Affiliation Title Abstracts
Chaste (Oxford, UK) Alex Fletcher
Mathematical Institute
University of Oxford, UK
Chaste: An open source C++ library for computational physiology and biology Abstract
CompuCell3D (Bloomington, USA) Maciej Swat
Biocomplexity Institute
Department of Physics
Indiana University, USA

Modeling tissues using CompuCell3D Abstract
 EPISIM (Heidelberg, G) Thomas Sütterlin
Department of medical oncology
University Hospital Heidelberg, Germany &
Tissue Imaging and Analysis Center, BioQuant, Heidelberg University, Germany
EPISIM Platform: Graphical multi-­scale modeling and simulation of multicellular systems Abstract
VirtualLeaf (Amsterdam, NL) Roeland Merks
Centrum Wiskunde & Informatica
Amsterdam, NL and Mathematical Institute
University Leiden, NL
Modeling animal tissues in VirtualLeaf: Towards an off-­lattice cellular 'Potts' model Abstract
CellSys (Leipzig, G) Tim Johann
Interdisciplinary Center for Bioinformatics (IZBI)
Universität Leipzig, Germany
CellSys: Modular software for physics-­based tissue modelling in 3D Abstract
 Biocellion (Seattle, USA) Ryan Tasseff
Institute for Systems Biology
Seattle, USA
Biocellion: Accelerating multicellular biological simulation Abstract
Morpheus (Dresden, G) Walter de Back
Center for Information Services and High Performance Computing
Technische Universität Dresden, Germany
Morpheus: User-­friendly modeling of multicellular systems Abstract

Time Schedule

  • Date: Thursday June 19 2014
  • Time: 09:00 - 13:00
  • Presentations: 20 minutes + 5 min discussion
Time Speaker
09:00 - 09:10 Introduction
09:10 - 09:35 Alex Fletcher
09:35 - 10:00 Maciej Swat
10:00 - 10:30 Coffee break
10:30 - 10:55 Thomas Sütterlin
10:55 - 11:20 Roeland Merks
11:20 - 11:45 Tim Johann
11:45 - 12:10 Ryan Tasseff
12:10 - 12:35 Walter de Back
12:35 - 13:00 Round table discussion
start.txt · Last modified: 2014/06/03 16:29 by tsutterlin