Boudewijn P.F. Lelieveldt



  • Integration of a-priori knowledge into segmentation and registration algorithms
  • Data analytics for 3D omics data
  • Main applications: neuroimaging and multi-modal pre-clinical imaging


Boudewijn P.F. Lelieveldt is professor of Biomedical Imaging at the Department of Radiology, Leiden University Medical Center, Leiden, the Netherlands, where he is heading the Division of Image Processing (LKEB). He is also appointed as Medical Delta professor at the Pattern Recognition and Bioinformatics group at Delft University of Technology in the context of the Medical Delta consortium. His main research interest is data analytics for spatially resolved –omics data, with applications in clinical imaging and biology. He is an Affiliated Investigator at the Allen Institute for Brain Science in Seattle, with a focus on 1) the development of fast and interactive data analysis methods for spatial transcriptomics and single cell data (BrainScope, Cytosplore), and 2) deploying the Allen Brain Atlases in the LUMC translational neuroscience research program. He serves as a member of the Editorial Board of Medical Image Analysis and the International Journal of Cardiovascular Imaging, and is an Associate Editor of IEEE Transactions on Medical Imaging. He is program committee member for several international conferences, has co-chaired the conferences IPMI 2007 and ISBI 2016.

key publications (2015-2017)

[1] Sjoerd M.H. Huisman, Baldur van Lew, Ahmed Mahfouz, Nicola Pezzotti, Thomas Höllt, Lieke Michielsen, Anna Vilanova, Marcel J.T. Reinders, Boudewijn P.F. Lelieveldt "BrainScope: interactive visual exploration of the spatial and temporal human brain transcriptome", Nucleic Acids Research, Online Methods paper, DOI: 10.1093/nar/gkx046, Januari 2017

[2] A. Mahfouz, S.M.H. Huisman, B.P.F. Lelieveldt, M.J.T. Reinders,"Brain Transcriptome Atlases: a Computational Approach", Brain Structure and Function, in press, 2017

[3] W.M.A. Abdelmoula, B. Baluff, S. Englert, J. Dijkstra, A. Walch, L.A. McDonnell, B.P.F. Lelieveldt, "Data Driven Identification of Prognostic Tumor Subpopulations Using Spatially Mapped t-SNE of Mass Spectrometry Imaging Data", Proceedings North American Academy of Sciences, vol 113(43), pp 12244-12249, doi:10.1073/pnas.1510227113, 2016

[4] V. van Unen, N. Li, I. Molendijk, M. Temurhan, A. van der Meulen – de Jong, T. Hoellt, H. Verspaget, L. Mearin, C. Mulder, J. van Bergen, B.P.F. Lelieveldt, F. Koning. "Mass Cytometry of the Human Mucosal Immune System Identifies Tissue- and Disease-Associated Immune Subsets", Immunity, vol 44(5), pp 1227-1239, 2016

[5] A. Mahfouz, B.P.F. Lelieveldt, A. Grefhorst, L.T.C.M. van Weert, I.M. Mol, H.C.M. Sips, J.K. van den Heuvel, N.A. Datson, J.A. Visser, M.J.T. Reinders, O.C. Meijer, "Genome-wide co-expression of steroid receptors in the mouse brain: identifying signaling pathways and functionally coordinated regions", Proceedings North American Academy of Sciences doi:10.1073/pnas.1520376113, 2016, (Highlighted on issue cover)

[6] N. Pezzotti, B.P.F. Lelieveldt, L.J. van der Maaten, E. Eisemann, A. Vilanova, "Approximated and User Steerable tSNE for Progressive Visual Analytics", IEEE Transactions on Visualization and Computer Graphics, in press, 2016.

[7] T. Hoellt, N. Pezzotti, V. van Unen, F. Koning, E. Eisemann, B.P.F. Lelieveldt, A. Vilanova, " Cytosplore: Interactive Immune Cell Phenotyping for Large Single-Cell Datasets", Computer Graphics Forum, vol. 35 (3), pp 171-180, 2016

[8] N. Pezzotti, T. Hoellt, B.P.F. Lelieveldt, E. Eisemann, A. Vilanova, " Hierarchical Stochastic Neightbor Embedding", Computer Graphics Forum, vol 35 (3), pp 21-30, 2016

[9] A. Mahfouz, M. van de Giessen, S. Huisman, M.J.T. Reinders, M.Hawrylycz, B.P.F. Lelieveldt, "Visualizing the spatial gene expression organization in the brain through non-linear similarity embeddings", Methods, vol 15(2), pp 79-89, 2015


Researcher profiles

For a more complete publication list, see the following Google Scholar profile, or this Thompson ResearcherID


Division of Image Processing
Department of Radiology, 1-C2S
Leiden University Medical Center
P.O. Box 9600
2300 RC Leiden
The Netherlands