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A data-driven multiscale simulation of organogenesis

Total Cost €


EC-Contrib. €






 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.

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

Project "SIMBIONT" data sheet

The following table provides information about the project.


Organization address
address: Meyerhofstrasse 1
postcode: 69117

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


Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 


 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.


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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