Abstract
Methods allowing the synthesis of realistic cell shapes could help generate training data sets to improve cell tracking and segmentation in biomedical images. Deep generative models for cell shape synthesis require a light-weight and flexible representation of the cell shape. However, commonly used voxel-based representations are unsuitable for high-resolution shape synthesis, and polygon meshes have limitations when modeling topology changes such as cell growth or mitosis. In this work, we propose to use level sets of signed distance functions (SDFs) to represent cell shapes. We optimize a neural network as an implicit neural representation of the SDF value at any point in a 3D+time domain. The model is conditioned on a latent code, thus allowing the synthesis of new and unseen shape sequences. We validate our approach quantitatively and qualitatively on C. elegans cells that grow and divide, and lung cancer cells with growing complex filopodial protrusions. Our results show that shape descriptors of synthetic cells resemble those of real cells, and that our model is able to generate topologically plausible sequences of complex cell shapes in 3D+time.
Original language | English |
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Title of host publication | Medical Image Computing and Computer Assisted Intervention – MICCAI 2022 |
Subtitle of host publication | 25th International Conference, Singapore, September 18–22, 2022, Proceedings, Part IV |
Editors | Linwei Wang, Qi Dou, P. Thomas Fletcher, Stefanie Speidel, Shuo Li |
Publisher | Springer |
Pages | 58-67 |
Number of pages | 10 |
ISBN (Electronic) | 978-3-031-16440-8 |
ISBN (Print) | 978-3-031-16439-2 |
DOIs | |
Publication status | Published - 2022 |
Event | 25th International Conference on Medical Computing and Computer-Assisted Intervention, MICCAI 2022 - Resorts World Convention Centre Singapore, Singapore, Singapore Duration: 18 Sep 2022 → 22 Sep 2022 Conference number: 25 https://conferences.miccai.org/2022/en/ |
Publication series
Name | Lecture Notes in Computer Science |
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Volume | 13434 |
Conference
Conference | 25th International Conference on Medical Computing and Computer-Assisted Intervention, MICCAI 2022 |
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Abbreviated title | MICCAI 2022 |
Country/Territory | Singapore |
City | Singapore |
Period | 18/09/22 → 22/09/22 |
Internet address |
Keywords
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