photo Alexis Vandenbon

Alexis Vandenbon

Computational biologist

Associate Professor
Institute for Life and Medical Sciences
Institute for Liberal Arts and Sciences
Kyoto University
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I am always looking for future students and collaborators to work together.
Please contact me at alexisvdb % (replace % with @)

Through our work, we strive to make meaningful contributions to the scientific community and to improve the lives of people everywhere. If you are interested in learning more about our research or collaborating with us, we invite you to explore our website and get in touch.

Research Interests

My current research is focusing on three topics:

  1. finding interesting genes in single-cell and spatial transcriptome data (see singleCellHaystack on GitHub and CRAN, or the publication)
  2. finding biological insights in single-cell and spatial transcriptomics data. See here for an example.
  3. analysis of large-scale gene expression data, including removal of technical biases and inference of gene regulatory networks
  4. analysis of stimulus-induced changes in epigenetic markers and their effect on transcription
In addition, I have been involved in many interdisciplinary collaborations, especially involving the field of immunology.

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Since 2017 I am teaching statistics, data analysis, bioinformatics, and R programming in Kyoto University.

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Career Summary

2022-present: Associate Professor, LiMe, Kyoto University
2017-2022: Lecturer, INFRONT (now LiMe), Kyoto University
2014-2017: Unit leader of the Immuno-Genomics Research Unit, IFReC, Osaka University
2012-2017: Specially Appointed Assistant Professor, IFReC, Osaka University
2009-2012: Post-doctoral researcher, IFReC, Osaka University
2009: Ph.D. in the field of Bioinformatics, University of Tokyo
2004: Master of Science in Molecular Biotechnology , Ghent University, Belgium
2003: Master in biochemistry, KHBO Belgium