FROM GENETICS TO IMMUNE RESPONSE: A NEURAL NETWORK APPROACH
The objective of the project is to fill gaps in our understanding of the immune system regulation in the context of the host genome, metabolome and microbiome. The task of the PostDoc is to design a computer-simulated artificial neural network model that is complex enough to catch the richness of the immune response. The validated model will be a powerful tool to predict human immune response based on genetic data.
This is a joint program of Radboud University Medical Center and the University of Twente in the framework of the TURBO Grant scheme.
While the cost for sequencing a human genome is only ~$1,000, predicting functionality/phenotype from a DNA sequence, however, is still challenging. Here, we propose a neural network approach to predict human immune response based on genetic data. We have recently initiated the Human Functional Genomics Project (HFGP), which aims to understand the genetic and non-genetic factors influencing human immune responses (Netea et al., Nature Med, 2016). The data comprise the cytokine response of three cohorts of 500 (500FG cohort), 200 (200FG) and 300 (300RO) individuals of Western-European and Eastern-European ancestry, linked to genetic, microbial and environmental factors.
The PostDoc will design a computer-simulated neural network that is complex enough to catch the richness of the cytokine response. After training in 500FG dataset, the model will be validated in the 200FG data set and in a population of a different genetic ancestry (300RO). The validated model will be used to predict the cytokine response in individuals from whom only genetic data are available, which would have important applications in patients with immune-mediated disorders. The ultimate goal, beyond the scope of this computational project, is to realize an efficient hardware realization of the neural network based on the proof-of-concept of the Van der Wiel group (Nature Nanotechnology, 2015). The PostDoc will collaborate closely with other PostDocs and PhD students in an interdisciplinary team of computer scientists, experimental and theoretical physicists, immunologists and mathematicians.
We are looking for a PostDoc with a PhD degree in computer science and/or mathematics with a strong background in artificial neural networks and machine learning. Experience with developing neural network models for big data search is considered advantageous. Our favored candidates are creative and like to push boundaries. We expect the candidate to have excellent command of the English language as well as professional communication and presentation skills.
For further information you can contact Prof. Wilfred van der Wiel at W.G.vanderWiel@utwente.nl.
Candidates are invited to upload their application at the UT web address, including a short motivation letter, references, and CV to the application button below.
Salary and conditions will be in accordance with the Collective Labour Agreement (CAO) of the Dutch Universities. Gross monthly salary depends on experience and qualifications and ranges from € 3111,-- to € 4084,--.
Additionally, the University of Twente provides excellent facilities for professional and personal development, a holiday allowance (amount to 8%), an end of year bonus (amounts to 8.3%) and a number of additional benefits.
The University of Twente. We stand for life sciences and technology. High tech and human touch. Education and research that matter. New technology which drives change, innovation and progress in society. The University of Twente is the only campus university in the Netherlands; divided over six faculties we provide more than fifty educational programmes. The University of Twente has a strong focus on personal development and talented researchers are given scope for carrying out pioneering research.
The faculty of Electrical Engineering, Mathematics and Computer Science (EEMCS) comprises three disciplines that shape Information and Communication Technology. ICT is more than communication. In almost every product we use mathematics, electronics and computer technology and ICT now contributes to all of societies' activities. The faculty works together intensively with industrial partners and researchers in the Netherlands and abroad and conducts extensive research for external commissioning parties and funders. The research which enjoys a high profile both at home and internationally, has been accommodated in the multidisciplinary research institutes MESA+, CTIT and MIRA.