Draft:Virginie Uhlmann

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Virginie Sophie Uhlmann
Alma mater
Scientific career
Fields
Institutions
ThesisLandmark Active Contours for Bioimage Analysis: A Tale of Points and Curves (2017)
Doctoral advisorMichael Unser
WebsiteUhlmann Website

Virginie Sophie Uhlmann holds the position of Director at the BioVisionCenter[1] located at the University of Zurich. Additionally, she serves as a Visiting Research Group Leader[2] at the European Bioinformatics Institute (EMBL-EBI) based in Cambridge. Her primary research focus is on quantitative bioimage analysis, with a particular emphasis on machine learning and computational geometry.

Education[edit]

After completing her Master's degree in Bioengineering at École Polytechnique Fédérale de Lausanne during which she also worked as a visiting scientist with Anne E. Carpenter and Shantanu Singh at the Broad Institute,[3][4] Uhlmann pursued her Ph.D. studies in Electrical Engineering at the same institution in the laboratory of Michael Unser.[5][6][7] Her research focused on image analysis, particularly the spline and approximation theory. Uhlmann was honored with the Asea Brown Boveri Ltd. (ABB) Award for her Ph.D. thesis, which proposed a unified formulation of active contour models and introduced innovative, user-friendly computational tools for bioimage analysis.[8]

Career and research[edit]

Uhlmann continued to work as a postdoctoral researcher in the laboratory of Michael Unser before joining the European Bioinformatics Institute (EMBL-EBI) in Cambridge as a group leader in 2018.[9][10] In 2022, Uhlmann was appointed as EMBL-EBI’s first Deputy Head of Research.[11][12]

In Cambridge, Uhlmann's area of research centers around bioimage informatics, which involves utilizing mathematical tools and computer vision algorithms to decipher information from bioimaging. Her research group engages in collaborative interdisciplinary projects that converge at the junction of biology, computer science, and mathematics.[13][14][15]

Since 2024, Uhlmann has been the director of the BioVisionCenter, a recently established entity that was co-founded by the Friedrich Miescher Institute for Biomedical Research and the University of Zurich. Its primary aim is to streamline the analysis of extensive bioimage datasets.[16]

Uhlmann holds the position of associate editor at two journals, namely PLOS Computational Biology[17] by the Public Library of Science and Biological Imaging[18] by Cambridge University Press. Additionally, she is a member of the Bio Imaging and Signal Processing Technical Committee[19] of the IEEE Signal Processing Society and is also a Member of IEEE.

Awards and honours[edit]

  • 2020 Asea Brown Boveri Ltd. (ABB) Award[20]

External links[edit]

References[edit]

  1. ^ "BioVisionCenter".
  2. ^ "Uhlmann Group – from images to biological knowledge".
  3. ^ "Carpenter-Singh Lab".
  4. ^ Uhlmann, Virginie; Singh, Shantanu; Carpenter, Anne E. (2016). "CP-CHARM: Segmentation-free image classification made accessible". BMC Bioinformatics. 17: 51. doi:10.1186/s12859-016-0895-y. PMC 4729047. PMID 26817459.
  5. ^ https://bigwww.epfl.ch/
  6. ^ Uhlmann, Virginie; Delgado-Gonzalo, Ricard; Conti, Costanza; Romani, Lucia; Unser, Michael (2014). "Exponential Hermite splines for the analysis of biomedical images". 2014 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) (PDF). pp. 1631–1634. doi:10.1109/ICASSP.2014.6853874. ISBN 978-1-4799-2893-4.
  7. ^ Delgado-Gonzalo, Ricard; Uhlmann, Virginie; Schmitter, Daniel; Unser, Michael (2015). "Snakes on a Plane: A perfect snap for bioimage analysis". IEEE Signal Processing Magazine. 32 (1): 41. Bibcode:2015ISPM...32...41D. doi:10.1109/MSP.2014.2344552.
  8. ^ Marti-Rochat, Patricia (29 October 2020). "Asea Brown Boveri LTD. (ABB) Award 2020 – Virginie Uhlmann".
  9. ^ "Welcome: Virginie Uhlmann". 28 March 2018.
  10. ^ "Deep learning for bioimage analysis". YouTube.
  11. ^ "EMBL-EBI appoints Deputy Head of Research". November 2022.
  12. ^ "Nurturing computational excellence: The unique research culture at EMBL-EBI". 11 September 2023.
  13. ^ Mandal, Soham; Uhlmann, Virginie (2021). "Splinedist: Automated Cell Segmentation with Spline Curves". 2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI). pp. 1082–1086. doi:10.1109/ISBI48211.2021.9433928. ISBN 978-1-6654-1246-9.
  14. ^ https://journals.biologists.com/dev/article/148/18/dev199616/272084/Deep-learning-for-bioimage-analysis-in
  15. ^ Uhlmann, Virginie; Donati, Laurene; Sage, Daniel (2022). "A Practical Guide to Supervised Deep Learning for Bioimage Analysis: Challenges and good practices". IEEE Signal Processing Magazine. 39 (2): 73. Bibcode:2022ISPM...39b..73U. doi:10.1109/MSP.2021.3123589.
  16. ^ "BioVisionCenter".
  17. ^ "Editorial Board | PLOS Computational Biology".
  18. ^ "Editorial board".
  19. ^ "Members". 2 March 2016.
  20. ^ Marti-Rochat, Patricia (29 October 2020). "Asea Brown Boveri LTD. (ABB) Award 2020 – Virginie Uhlmann".



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