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Prof. Mantalaris is leading the H2020-sponsored ETN SyMBioSys. SymBioSys is a MARIE SKLODOWSKA-CURIE Innovative Training Network (ITN) comprising of 11 academic and industrial partners. The main objective of SyMBioSys is to provide a new generation of innovative and entrepreneurial early-stage researchers (ESRs) that will develop cutting-edge kinetic models for biological processes via systems engineering research and will exploit these for designing novel biotechnological applications.  For more information and vacancies please visit the official website of SymBioSys

Prof. Mantalaris is also partner to the H2020-sponsored ETN ModLife, a dynamic, multidisciplinary ITN training network, ModLife, which is European Training Network initiative that brings together 5 leading European universities, 4 global industrial players and 2 SMEs to undertake research and training in the area of product-process innovation, optimization monitoring and control for life sciences and biotechnology industries. Modlife aims to develop Advanced Model-Based Optimization, Monitoring and Control as Enabling Technologies for bioprocess-product development and innovation tailored for the needs in life science industries.  For more information and vacancies please visit the official website of ModLife




SyMBioSys Vacancies

Host institutionCountryProject titleObjectivesHow to apply
Rijksuniversiteit Groningen  Netherlands Modeling metabolic behavior in bacteria including transcriptional regulation of metabolism  (i) How to develop kinetic models that describe metabolic behavior including transcriptional regulation of metabolism; (ii) Exploit novel algorithms and tools developed by the modeling partners ; (iii) Exploit available omics data.
Aristotle University of Thessaloniki  Greece Capturing Heterogeneity Across Many Scales using Population Balances (PB) models. (i) To develop a population balance (PB) -based modeling framework for capturing heterogeneity across many scale in biological systems engineering problems; (ii) To implement the developed models in PSE’s  gPROMS  modeling platform.

Invitation for applications now closed.

Uniklinikum Aachen  Germany Modeling of cell signaling via hybrid networks. (i) Understanding in model and train hybrid networks combining signaling, regulatory, and metabolic networks: (ii) Exploit new algorithms developed by CSIC and AUTH; (iii) Insights in metabolic and cell signaling networks.
Uniklinikum Aachen  Germany Identification of logic-based dynamic models of biochemical networks. (i) Understanding of optimization methods; (ii) Exploit advanced methods for mixed-integer dynamic optimization developed by the Banga group at CSIC; (iii) Data acquisition: mass spectrometry based phosphoproteomics to single-cell phosphorylation data recorded with imaging data. Use of xMAP core technology; (iv) Optimal experimental design.
AGENCIA ESTATAL CONSEJO SUPERIOR DE INVESTIGACIONES CIENTÍFICAS  Spain Systematic reverse-engineering methods for dynamic model identification, selection and discrimination. (i) Use reverse-engineering methodology; (ii) Model selection and calibration; (iii) Optimization problem formulation; (iv) Mixed-integer nonlinear programming (MINLP); (v) Testing of the methods developed with model selection and discrimination regarding dynamic models of bacterial metabolism and cell signaling.

Invitation for applications now closed.

AGENCIA ESTATAL CONSEJO SUPERIOR DE INVESTIGACIONES CIENTÍFICAS  Spain Optimal control methods to explain and predict operating principles in biochemical pathways. (i) Use optimal control formulations (using a mixed-integer dynamic optimization framework) in metabolic and signaling pathways; (ii) Testing the methods developed with unbranched and branched pathways of increasing complexity.

Invitation for applications now closed.

HUMBOLDT-UNIVERSITÄT  Germany Optimal metabolic regulation through cell signaling. (i) Applying dynamic optimization methods to explain and predict behavior in complex biochemical pathways; (ii) Exploiting optimality principles to explain metabolic regulation via cell signaling.  Invitation for applications now closed.
HUMBOLDT-UNIVERSITÄT  Germany Drug target detection as optimality problem. (i) Applying dynamic optimization methods to explain and predict behavior in complex biochemical pathways; (ii) Model-based optimization strategies for drug target detection. Invitation for applications now closed.
PROCESS SYSTEMS ENTERPRISE  UK Algorithms and software tools for calibration of biological process models. (i) Bayesian model calibration, and determination of the resulting parameter and output distributions; (ii) Bayesian or frequentist robust parameter estimation subject to uncertainty in parameters not to be estimated; (iii) Determination of frequentist nonlinear confidence regions and profile likelihood characterisation of the solution topology; (iv) Global uncertainty and sensitivity analysis.  
INSILICO BIOTECHNOLOGY  Germany Application of the new algorithms and software tools to biological test cases, from the analysis of metabolic and signaling networks to metabolic engineering and biomedical problems. (i) Design and (co)-develop methods and algorithms for identifying network models from OMICS time-series data (esp. metabolite data), which account for data uncertainty. (ii) Implement these methods and algorithms in an existing software capitalizing on high-performance computing infrastructures; (iii) Apply the newly developed software tool to (a) Identify gene targets for improving efficiency of microbial production processes, (b) Identify improved process conditions for recombinant protein production using mammalian cell lines.
SILICOLIFE   Portugal Development of bi-level strain optimization algorithms and software tools. (i) Development of bi-level strain optimization algorithms and respective computational tools; (ii) Identification of enzyme over/under expression or deletion leading to the maximization of the production of compounds of industrial interest; (iii) Metaheuristic optimization methods (e.g. Evolutionary Computation, Simulated Annealing) will be adapted and improved to address the underlying optimization tasks.

Invitation for applications now closed.

IMPERIAL COLLEGE LONDON  UK Model-based optimization for personalized leukemia treatment using an integrated experimental / computational platform. (i) Development of an in silico leukemia model; (ii) Dealing with the extraction of patient/disease-specific experimental da ta; (iii) ‘Closing the loop’ between the in vitro and in silico platforms t owards pre-clinical applications. Applications period open until 11 November:
PROTATONCE  Greece Integration of signaling models with clinical databases and proteomic, phopshoproteomic, transcriptomic, and genomi c data. (i) Learn the advanced methods developed by the Banga group at CSIC or Saez Group at UKAACHEN ; (ii) Application and validation of the methods developed in real-life p roblems for drug discovery; (iii) Integrates the methods with the state-of-the-art data that PAO produce in-house.
ÉCOLE POLYTECHNIQUE FÉDÉRALE DE LAUSANNE  Switzerland Large-scale kinetic model of human metabolism. (i) Incorporate into a model: pathways for central carbon metabolism, essential amino acid metabolism and purine/pyrimidine metabolism; (ii) Identify the effects of changes in enzyme activities and environmental condi tions on the metabolic fluxes, redox and energy state, and other physiological states specific to the system of study; (iii) Integrate signal transduction pathways that inte ract with metabolism into the model.

open until end of November.

Summary of the table's contents