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PhD fellowship in multi-omics data mining through (dynamic) mechanistic models (ESR1)

ABG-96994 Sujet de Thèse
08/04/2021 Financement de l'Union européenne
PhD fellowship in multi-omics data mining through (dynamic) mechanistic models (ESR1)
  • Biologie
  • Biotechnologie
  • Informatique

Description du sujet

“E-MUSE Complex microbial ecosystems multiscale modelling: mechanistic and data driven approaches integration” MSCA-ITN-2020 European Training Network

Are you interested in a comprehensive, interactive and international research programme? Do you want your research to cover the broader aspects and interface between biology, bioinformatics, statistics, systems biology, predictive microbiology and artificial intelligence? Then, please apply for this PhD fellowship at Vrije Universiteit Amsterdam (VU).

The E-MUSE training programme aims at developing young researchers’ skills at the interface between artificial intelligence and life sciences. The challenge is to acquire a shared language bridging life science questions and original modelling approaches. The research programme of the E-MUSE network is to develop innovative modelling methodologies to understand a complex microbial ecosystem and identify levers to control and/or predict its evolution. To deal with biological complexity, biologists, mathematicians, and computer scientists have to work together to develop innovative methodologies. An important complexity of this domain originates from scales and dynamics issues, ranging from local kinetics at the level of the cell to emerging macroscopic properties of the biological system. The development of high throughput techniques provides more and more large datasets, but knowledge is not easily inferred from this huge amount of data and multiscale dynamics are still incompletely characterised and predicted. E-MUSE’s transdisciplinary network gathers academic and industrial partners to equip Early Stage Researchers (ESRs) with scientific, research and transferable skills to become leaders in academic research or industry. They will be at the cutting edge of the modelling methodologies that we apply to model structural and dynamic features of microbial communities, to identify key processes and biomarkers for specific applications.

Nature du financement

Financement de l'Union européenne

Précisions sur le financement

E-MUSE project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 956126”.

Présentation établissement et labo d'accueil


The lab of VUA, in which the proposed work will be carried out, studies the molecular networks inside cells that give rise to cell behavior and fitness, in isolation and in interaction with other cells and their environment. The team focuses on the principles and general understanding of how those networks adapt in response to environmental and genetic changes and combine mathematical modelling, theory, and experiments. The approach is to apply the fundamental insights and methods in a biotechnological and biomedical setting.

Profil du candidat

Eligibility criteria

  • Any nationality
  • Early Stage Researchers (ESR)

The applicant needs to be in the first four years of their research careers at the date of recruitment by the host organisation, and have not been awarded a doctoral degree.

The first four years are measured from the date of applicant’s degree either in the country in which the degree was obtained or in the country in which the researcher is recruited, irrespective of whether doctorate was ever envisaged.

  • Mobility Rule

The ESR must have not resided or carried out main activity (work, studies, etc.) in the country of their host organisation ≤ 12 months* in the 3 years immediately prior to their recruitment.

Exceptions: The ESR must not have spent more than 12 months in the 3 years immediately prior to the date of selection in the same appointing international organisation.

*EXCLUDED: short stays such as holidays, compulsory national services such as mandatory military service and procedures for obtaining refugee status under the Geneva Convention

  • Language

Applicants must demonstrate fluent reading, writing and speaking abilities in English.


ESR1: Master’s degree in systems biology, bioinformatics, (bio)physics, engineering or biology with a strong theoretical/computational component                                      

Required Skills/Qualifications:

  • Independence, curiosity, open mindedness, ability to (learn to) communciate with different disciplines (experimental, computational, theoretical) and will to understand complex systems
  • educational background and previous research experience relevant for the chosen position
  • networking and communication skills in a multicultural and multidisciplinary environment
  • willingness to travel abroad for the purpose of research, training and dissemination
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