Alexander Schönhuth

Full Name
Prof.dr. A. Schönhuth
Researcher - Unknown
+31 20 592 4113
Life Sciences and Health


I am a Genome Data Scientist who works at the interfaces of statistics, discrete mathematics and pattern recognition on the one hand and molecular biology and biomedicine on the other hand. I joined CWI in 2010, coming from UC Berkeley where I was a postdoctoral fellow in the Laboratory for Mathematical and Computational Biology in the Department of Mathematics, and I got tenure at CWI in 2014. Prior to UC Berkeley I also was a postdoctoral fellow in the Data Mining and Computational Laboratories of the School of Computing Science at Simon Fraser University in Vancouver. I received my PhD in 2006 from University of Cologne, Germany. On the theoretical end, I am particularly interested in data mining, sequence analysis and machine learning, with a special focus on Markovian and latent variable models. Biomedical questions I address relate to issues in computational genomics, in particular in the areas of pathogen, cancer and single cell biology. Genotyping and phasing variants from next- and third-generation sequencing data is a special focus. I am also concerned with computational pan-genomics, that is, to try to make sense out of -- soon -- millions of sequenced genomes, and with translating genome sequencing data into information that one can make use of in clinical practice, using machine learning methods.


Current projects with external funding

  • Statistical Models for Structural Genetic Variants in the Genome of the Netherlands

Professional activities

  • Committee member: Member Program Committee - ACM Conference on Bioinformatics,ᅠᅠComputational Biology and Biomedicine [ACM-BCB], 2012, 2017
  • Committee member: Founding Member - Consortium, "Computational Pangenomics"
  • Committee member: Member Consortium - "The Genome of the Netherlands"


  • - Summer Semester Stipends, IPAM, UCLA, 2016, 2017 (2016)
  • Vidi Innovational Research Grant NWO (2013)
  • - Fall Semester Stipend, IPAM, University of California at Los (2011)


  • Faculty of the 1000 paper award (voor "CLEVER: Clique-Enumerating Variant Finder") (2013)