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Dr. D.F. (David) Nieuwenhuijse


  • Focus area
  • Bioinformatics, Viruses, Metagenomics, Sequence annotation
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Research interests

My interest is to build bioinformatic tools that link viral genome sequence based information to viral traits and viral communities to viral sources. Knowing these links, we can get a better insight into what kind of viruses are out there and which are potential pathogens that require additional investigation. Further, I want to better map the relationships between viral genomes and the proteins they encode and study their evolution, assign traits, and predict the effect of mutations. To those ends I build bioinformatic tools, workflows, and databases to analyze, visualize and bring together multiple types of data always with a focus on biological interpretability.


I have double master’s degree in biotechnology and bioinformatics and wrote my PhD thesis under supervision of Prof. Marion Koopmans on using metagenomic sequencing for viral surveillance in sewage samples and near-real-time genomic surveillance of SARS-CoV-2 in the Netherlands using the Nanopore sequencing platform. Over the years I have developed an expertise in data wrangling, data visualization and software and workflow development using R and Python script. Working on metagenomic datasets and with viral experts at the Viroscience department I have developed a broad foundational knowledge of a wide range of viruses.


For an up-to-date list of my publications, please refer to my google scholar page and ORCHID.