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From Data to Models: New Bioinformatics Methods and Tools for Data-Driven Predictive Dynamic Modelling in Biotechnological Applications

Objectif

Currently, biologists are collecting enormous amounts of ‘omics’ data in a vast number of different databases. Predictive, data-driven computational models are needed to understand the complex, multi-scale biological networks underlying these high-throughput datasets. Such models are non-linear and contain many parameters, which are difficult (or impossible) to measure directly. Instead, parameters need to be inferred from data. This approach is called reverse-engineering. It has tremendous potential for several areas, such as biotechnology and systems biology, since it allows us to develop models with unprecedented accuracy and predictive power. This is achieved through an iterative refinement of our models compared to quantitative ‘omics’ data, a process called the systems-biology modelling cycle. Many methods have been developed that deal with specific steps in this cycle (data analysis, model building/discrimination, parameter estimation/identifiability analysis, uncertainty quantification, and optimal experimental design), but we still lack an over-arching, easy-to-use software framework that supports the modelling cycle in its entirety, allowing its widespread application. This project aims at improving accessibility of the data, and developing novel algorithms and tools implemented in such a general framework, which will enable the efficient transfer of cutting-edge modelling and optimisation methods from an academic research setting to private biotechnology partners. We will use representative biological and biotechnological applications as benchmark problems to develop robust and generally applicable methodology. The availability of such tools to the biotechnology sector (and other industries) will greatly enhance our ability to design and optimise complex production processes, especially those of nutraceuticals, biopharmaceuticals, or fine chemicals based on engineered organisms such as bacteria, yeast or plants.

Appel à propositions

FP7-KBBE-2011-5
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Coordinateur

FUNDACIO CENTRE DE REGULACIO GENOMICA
Adresse
Carrer Doctor Aiguader 88
08003 Barcelona
Espagne

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Type d’activité
Research Organisations
Contact administratif
Stefan Pönisch (Mr.)
Contribution de l’UE
€ 477 987

Participants (11)

AGENCIA ESTATAL CONSEJO SUPERIOR DE INVESTIGACIONES CIENTIFICAS
Espagne
Contribution de l’UE
€ 320 145
Adresse
Calle Serrano 117
28006 Madrid

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Type d’activité
Research Organisations
Contact administratif
Eusebio Jimenez Arroyo (Mr.)
EUROPEAN MOLECULAR BIOLOGY LABORATORY
Allemagne
Contribution de l’UE
€ 171 931
Adresse
Meyerhofstrasse 1
69117 Heidelberg

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Type d’activité
Research Organisations
Contact administratif
Tom Ratcliff (Mr.)
UNIVERSITEIT VAN AMSTERDAM
Pays-Bas
Contribution de l’UE
€ 307 242
Adresse
Spui 21
1012WX Amsterdam

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Type d’activité
Higher or Secondary Education Establishments
Contact administratif
Vanessa Wolters (Ms.)
STICHTING CENTRUM VOOR WISKUNDE EN INFORMATICA
Pays-Bas
Contribution de l’UE
€ 267 428
Adresse
Science Park 123
1098XG Amsterdam

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Type d’activité
Research Organisations
Contact administratif
Margriet Brouwer (Ms.)
FONDAZIONE TELETHON ETS
Italie
Contribution de l’UE
€ 115 200
Adresse
Via Varese 16/b
00185 Roma

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Type d’activité
Research Organisations
Contact administratif
Irene Mearelli (Ms.)
THE UNIVERSITY OF MANCHESTER
United Kingdom
Contribution de l’UE
€ 257 853
Adresse
Oxford Road
M13 9PL Manchester

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Type d’activité
Higher or Secondary Education Establishments
Contact administratif
Liz Fay (Ms.)
THE UNIVERSITY OF SHEFFIELD
United Kingdom
Contribution de l’UE
€ 291 240
Adresse
Firth Court Western Bank
S10 2TN Sheffield

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Type d’activité
Higher or Secondary Education Establishments
Contact administratif
Joanne Watson (Ms.)
COSMO TECH
France
Contribution de l’UE
€ 282 000
Adresse
Passage Du Vercors 5 Le Vercors
69007 Lyon

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Type d’activité
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Contact administratif
Visnia Boccon-Gibod (Ms.)
INSILICO BIOTECHNOLOGY AG
Allemagne
Contribution de l’UE
€ 259 200
Adresse
Meitnerstrasse 9
70563 Stuttgart

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Type d’activité
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Contact administratif
Klaus Mauch (Mr.)
FLUXOME SCIENCES A/S

Participation terminée

Danemark
Contribution de l’UE
€ 137 376
Adresse
Diplomvej 378
2800 Lyngby

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Type d’activité
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Contact administratif
Sarah Barret (Ms.)
EVOLVA AG
Suisse
Contribution de l’UE
€ 112 398
Adresse
Duggingerstrasse 23
4153 Reinach

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Type d’activité
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Contact administratif
Jakob Dynnes Hansen (Mr.)