PhD Researcher on Metabolic Network Models at CropXR / University of Amsterdam

PhD Researcher on Metabolic Network Models at CropXR / University of Amsterdam

Published Deadline Location
1 Feb 3 Mar Amsterdam

Job description

Do you want to be part of the development of resilient crops that require no inputs that negatively impact our planet, and contribute to healthy life? Then you could be the ideal candidate to join our new, interdisciplinary (virtual) research institute CropXR!

CropXR brings together efforts from different academic disciplines (such as plant sciences, computational and data sciences, and social sciences) and private industry to help bring about sustainable change. It receives support from NWO, the Dutch National Growth Fund, and the Foundation for Food & Agricultural Research. CropXR was launched in 2023 to help make agricultural production less vulnerable to climate change and less dependent on artificial fertilizers and chemical pesticides. The institute is a joint venture of the universities of Amsterdam, Delft, Wageningen and Utrecht in partnership with Plantum, the Dutch plant breeding sector association.

With a budget of 96 million Euro over the next decade, CropXR focuses on creating eXtra Resilient (XR), sustainable, and climate-adaptive crops. By combining plant biology, simulation modelling, and artificial intelligence we aim to develop ‘smart breeding and cultivation’ methods to speed up breeding for complex resilience traits in different growing systems for several crops. Please learn more about CropXR at cropx.org.

This PhD position is part of a project within CropXR’s core research programme. The overall aim of this workpackage is to understand how a plant responds to changes in the environment, at the level of gene regulation and metabolic output. In this workpackage five PhD students combine wet- and drylab approaches aiming to identify key regulatory genes and metabolites for optimized plant defence production.

As a PhD student you will be involved in the mathematical modeling of metabolic pathways by means of differential equations. We would like to predict the metabolic response of the plant to biotic and abiotic stress factors. We furthermore aim to integrate the dynamic mechanistic metabolic networks with gene regulatory networks. Your work will normally be caried out at the Science Park in Amsterdam.

What are you going to do?
You are expected to:
  • to complete a PhD thesis within the official appointment duration of four years;
  • work independently, yet in close collaboration with the other PhD students within the CropXR consortium;
  • develop mathematical models in the form of differential equations in order to predict the behaviour of a

metabolic pathway;
  • be active and eager in research and constructive in collaborations;
  • take part in scientific and social activities within the CropXR consortium, the research departments and

the institute;
  • assist in teaching and supervise Bachelor and Master theses and tutoring students.

Specifications

University of Amsterdam (UvA)

Requirements

You have/are
  • a MSc degree in bioinformatics, computational science or mathematics, or biology;
  • trained in bioinformatics, computational biology or mathematics/computational science,

with interest in (plant) biology. Or, trained as plant biologist with demonstratable affinity in computational modelling;
  • a proactive, curious attitude and creative ideas;
  • the willingness to learn and participate in scientific discussion;
  • a team player motivated to work towards common goals;
  • possess excellent command of written and spoken English as evidenced in your MSc theses.

Conditions of employment

We offer a temporary contract for 38 hours per week for the duration of 4 years (the initial contract will be for a period of 18 months and after satisfactory evaluation it will be extended for a total duration of 4 years). This should lead to a dissertation (PhD thesis). We will draft an educational plan that includes attendance of courses and (international) meetings. We also expect you to assist in teaching undergraduates and master students.

Based on a full-time appointment (38 hours per week) the gross monthly salary will range from €2.770 in the first year to €3.539 (scale P) in the last year. This is exclusive 8% holiday allowance and 8.3% end-of-year bonus. A favourable tax agreement, the ‘30% ruling’, may apply to non-Dutch applicants. The Collective Labour Agreement of Dutch Universities is applicable.

Are you curious about our extensive package of secondary employment benefits like our excellent opportunities for study and development? Take a look here.

Employer

Faculty of Science

The Faculty of Science has a student body of around 7,000, as well as 1,600 members of staff working in education, research or support services. Researchers and students at the Faculty of Science are fascinated by every aspect of how the world works, be it elementary particles, the birth of the universe or the functioning of the brain.

Research at the Swammerdam Institute for Life Sciences (SILS) focusses on understanding the functioning of living organisms, from the most basic aspects up to complex physiological functions. Biological processes are studied at the level of molecules, cells, cellular networks and organisms, and the interactions between and in all those levels. We integrate research on gene expression, the structure of DNA molecules and chromatin, protein-protein interactions, protein structure-function relations and signal transduction processes, as they take place in man, animal, plant and micro-organism.

The research theme Cell & Systems Biology ambition is to understand spatiotemporal behaviour at the molecular and cellular level and to unravel the underlying biological and physicochemical principles.

The Biosystems Data Analysis department aims to develop and validate methods for organizing, summarizing and visualising complex biological data for systems biology, through the integration of bioinformatics and biostatistics.

Application
Do you recognize yourself in the job profile? Then we look forward to receiving your application by 3 March 2024. You can apply online by using the link below.

Applications in .pdf should include:
  • a motivation letter and CV, including a list of courses and MSc projects/theses;
  • contact details for two references

Please mention the months (not just years) in your CV when referring to your education and work experience.

We will invite potential candidates for interviews in the second half of March 2024.

A knowledge security check can be part of the selection procedure.
(for details: National knowledge security guidelines)

Additional information

Do you have questions about this vacancy? Or do you want to know more about our organisation?

Please contact:

About the Faculty of Science and the Swammerdam Institute for Life Sciences
The Faculty of Science has a student body of around 7,000, as well as 1,600 members of staff working in education, research or support services. Researchers and students at the Faculty of Science are fascinated by every aspect of how the world works, be it elementary particles, the birth of the universe or the functioning of the brain.

Research at the Swammerdam Institute for Life Sciences (SILS) focusses on understanding the functioning of living organisms, from the most basic aspects up to complex physiological functions. Biological processes are studied at the level of molecules, cells, cellular networks and organisms, and the interactions between and in all those levels. We integrate research on gene expression, the structure of DNA molecules and chromatin, protein-protein interactions, protein structure-function relations and signal transduction processes, as they take place in man, animal, plant and micro-organism.

The research theme Cell & Systems Biology ambition is to understand spatiotemporal behaviour at the molecular and cellular level and to unravel the underlying biological and physicochemical principles.

The Biosystems Data Analysis department aims to develop and validate methods for organizing, summarizing and visualising complex biological data for systems biology, through the integration of bioinformatics and biostatistics.

Application
Do you recognize yourself in the job profile? Then we look forward to receiving your application by 3 March 2024. You can apply online by using the link below.

Applications in .pdf should include:
  • a motivation letter and CV, including a list of courses and MSc projects/theses;
  • contact details for two references

Please mention the months (not just years) in your CV when referring to your education and work experience.

We will invite potential candidates for interviews in the second half of March 2024.

A knowledge security check can be part of the selection procedure.
(for details: National knowledge security guidelines)

Specifications

  • PhD
  • Natural sciences
  • max. 38 hours per week
  • University graduate
  • 12595

Employer

University of Amsterdam (UvA)

Learn more about this employer

Location

Science Park 904, 1098XH, Amsterdam

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Application procedure

Application procedure

Make sure to apply no later than 3 Mar 2024 23:59 (Europe/Amsterdam).