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SIMBIONT SIGNED

A data-driven multiscale simulation of organogenesis

Total Cost €

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EC-Contrib. €

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Partnership

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 SIMBIONT project word cloud

Explore the words cloud of the SIMBIONT project. It provides you a very rough idea of what is the project "SIMBIONT" about.

expression    cell    scales    single    tomo    grow    question    shape    generation    deep    molecular    enormous    mechanical    robustness    patterning    patterns    pieces    tissues    multicellular    brain    organogenesis    quantitative    organogensis    limb    optispim    experimentally    fundamental    genes    techniques    mouse    latest    predictions    tissue    medically    puzzle    cells    interactions    parallel    carefully    seq    functions    gene    morphogen    organ    mammalian    mutants    helped    global    heart    putting    gather    molecules    purpose    grand    ask    engineering    molecularly    simbiont    serve    interact    framework    levels    vitro    perturbations    scientifically    medicine    integrate    differentiate    physically    constructed    data    modeling    intercalation    coordinated    multiple    questions    computer    types    regenerative    gradients    simulation    structures    first    eg    cellular    understand    create    model    bud    signaling    rates    scientific    simulate    movements    3d   

Project "SIMBIONT" data sheet

The following table provides information about the project.

Coordinator
EUROPEAN MOLECULAR BIOLOGY LABORATORY 

Organization address
address: Meyerhofstrasse 1
city: HEIDELBERG
postcode: 69117
website: http://www.embl.de

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Germany [DE]
 Total cost 2˙075˙055 €
 EC max contribution 2˙075˙055 € (100%)
 Programme 1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
 Code Call ERC-2014-ADG
 Funding Scheme ERC-ADG
 Starting year 2015
 Duration (year-month-day) from 2015-09-01   to  2020-08-31

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    EUROPEAN MOLECULAR BIOLOGY LABORATORY DE (HEIDELBERG) coordinator 1˙492˙803.00
2    FUNDACIO CENTRE DE REGULACIO GENOMICA ES (BARCELONA) participant 582˙251.00

Map

 Project objective

Organogensis is the process by which multiple different cell types grow, differentiate and interact with each other (both molecularly and physically) to create large complex structures with integrated functions, such as the heart, brain or limb. Understanding this process has enormous potential impact, both scientifically and medically. The SIMBIONT project represents both a grand technical challenge, and a fundamental scientific question. The grand technical challenge is to build the first ever multi-scale computer model of mammalian organogenesis, specifically limb development. This purpose of the model is to help us address the deep scientific question: How are the complex interactions at multiple scales (genes, molecules, cells and tissues) coordinated so as to build a carefully constructed 3D organ? So far, computer modelling has helped to understand some of the pieces of this puzzle, eg. morphogen gradients, or control of tissue growth. However, putting multiple pieces together into a single multi-scale simulation remains a challenge. We will use the latest state-of-the-art quantitative data-generation techniques (including Tomo-Seq and OPTiSPIM), to gather 3D data at multiple levels: gene expression patterns, cell signaling, cellular growth rates, intercalation patterns, and global tissue movements. In parallel we will develop a new multi-scale modeling framework which can integrate this quantitative data, to simulate both the molecular patterning and the mechanical growth of the developing limb bud. Doing so will allow us to ask new systems-level questions about (i) the molecular control of organ shape, (ii) coordination of patterning and growth, and (iii) the multi-scale robustness of the system. We will test the key predictions of the model experimentally (both with mouse mutants, and in vitro perturbations). SIMBIONT will serve as an example for modeling other complex multicellular processes in the future, eg. tissue engineering and regenerative medicine.

 Publications

year authors and title journal last update
List of publications.
2018 Xavier Diego, Luciano Marcon, Patrick Müller, James Sharpe
Key Features of Turing Systems are Determined Purely by Network Topology
published pages: , ISSN: 2160-3308, DOI: 10.1103/physrevx.8.021071
Physical Review X 8/2 2019-09-04
2019 Philipp Germann, Miquel Marin-Riera, James Sharpe
ya||a: GPU-Powered Spheroid Models for Mesenchyme and Epithelium
published pages: 261-266.e3, ISSN: 2405-4712, DOI: 10.1016/j.cels.2019.02.007
Cell Systems 8/3 2019-09-04

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The information about "SIMBIONT" are provided by the European Opendata Portal: CORDIS opendata.

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