{"id":205,"date":"2023-03-11T20:02:14","date_gmt":"2023-03-11T20:02:14","guid":{"rendered":"https:\/\/arcaid-h2020.eu\/?page_id=205"},"modified":"2023-03-17T14:01:09","modified_gmt":"2023-03-17T14:01:09","slug":"full-project-description-esr-11","status":"publish","type":"page","link":"https:\/\/arcaid-h2020.eu\/?page_id=205","title":{"rendered":"Full project description ESR 11"},"content":{"rendered":"

ESR 11: <\/span><\/strong>Understanding auto-immune disorders through computational modelling. <\/strong><\/span><\/p>\n

PhD research<\/span><\/p>\n

Hosts:<\/span><\/span><\/p>\n

Prof. dr. A.H.C. van Kampen (Antoine)<\/strong><\/span><\/p>\n

Bioinformatics Laboratory<\/span><\/p>\n

Clinical Epidemiology, Biostatistics, and Bioinformatics<\/span><\/p>\n

https:\/\/bioinformatics.amc.nl\/<\/a><\/span><\/p>\n

Dr. E.G.M. van Baarsen (Lisa)<\/strong><\/span><\/p>\n

Experimental Immunology<\/span><\/p>\n

Internal Medicine: Clinical Immunology and Rheumatology<\/span><\/p>\n

Amsterdam University Medical Centers (location AMC)<\/span><\/p>\n

Meibergdreef 9<\/span><\/p>\n

105AZ  Amsterdam<\/span><\/p>\n

The Netherlands<\/span><\/p>\n

Duration: <\/span>48 months<\/span><\/p>\n

Background<\/span><\/span><\/p>\n

To ultimately cure or prevent rheumatoid arthritis, it is critical to understand the earliest changes in the immune system that cause rheumatoid arthritis (RA). Using computational modelling and (single cell) genome-wide expression profiling we aim to delineate the role of stromal cells in bone marrow, lymph node and synovial tissue in arthritis development. Results from these studies may provide innovative drug targets for preventive intervention in pre-clinical RA and identify the immunological processes that initiate RA and possibly other related chronic inflammatory diseases.<\/span><\/p>\n

Approach <\/span><\/span><\/p>\n

The PhD candidate will develop computational models that contribute to the understanding of cellular and\/or molecular mechanisms underlying RA with a particular focus on stromal cells. Depending on the precise questions and data available, the candidate will develop computational models using approaches such as differential equations, agent-based modelling, (Gillespie) stochastic modelling, etc. These approaches will be used to describe cellular mechanisms and gene regulatory networks in order to gain further insights in the mechanisms underlying RA. The candidate aims to integrate models developed at the cellular level with models at the molecular level (i.e. multi-scale modelling). These models will partially be based on (single cell) omics data (e.g., RNAseq). Therefore, the candidate will be involved in the exploitation of such data for defining the gene regulatory networks and the parameterization of the computational models.<\/span><\/p>\n

Our research team<\/span><\/span><\/p>\n

The Bioinformatics Laboratory (Van Kampen) focusses on system genomics and systems medicine approaches to address biomedical questions. For more information see  (http:\/\/www.bioinformaticslaboratory.nl<\/a>)<\/span>. The department of Experimental Immunology and the department of Internal Medicine: Clinical Immunology and Rheumatology (Van Baarsen) focus on the development of new approaches to delineate (auto)immune disorders and to translate findings to the clinic.
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