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Özgün Çiçek
Researcher at University of Freiburg
Publications - 20
Citations - 7533
Özgün Çiçek is an academic researcher from University of Freiburg. The author has contributed to research in topics: Supervised learning & Optical flow. The author has an hindex of 11, co-authored 18 publications receiving 4855 citations.
Papers
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Book ChapterDOI
3D U-Net: Learning Dense Volumetric Segmentation from Sparse Annotation
Özgün Çiçek,Ahmed Abdulkadir,Ahmed Abdulkadir,Soeren S. Lienkamp,Thomas Brox,Olaf Ronneberger,Olaf Ronneberger +6 more
TL;DR: In this paper, the authors propose a network for volumetric segmentation that learns from sparsely annotated volumetrized images, which is trained end-to-end from scratch, i.e., no pre-trained network is required.
Journal ArticleDOI
U-Net: deep learning for cell counting, detection, and morphometry
Thorsten Falk,Dominic Mai,Robert Bensch,Özgün Çiçek,Ahmed Abdulkadir,Ahmed Abdulkadir,Yassine Marrakchi,Anton Böhm,Jan Deubner,Zoe Jäckel,Katharina Seiwald,Alexander Dovzhenko,Olaf Tietz,Cristina Dal Bosco,Sean Walsh,Deniz Saltukoglu,Tuan Leng Tay,Marco Prinz,Klaus Palme,Matias Simons,Ilka Diester,Thomas Brox,Olaf Ronneberger +22 more
TL;DR: An ImageJ plugin is presented that enables non-machine-learning experts to analyze their data with U-Net on either a local computer or a remote server/cloud service.
Posted Content
3D U-Net: Learning Dense Volumetric Segmentation from Sparse Annotation
Özgün Çiçek,Ahmed Abdulkadir,Ahmed Abdulkadir,Soeren S. Lienkamp,Thomas Brox,Olaf Ronneberger,Olaf Ronneberger +6 more
TL;DR: The proposed network extends the previous u-net architecture from Ronneberger et al. by replacing all 2D operations with their 3D counterparts and performs on-the-fly elastic deformations for efficient data augmentation during training.
Journal ArticleDOI
Single-cell profiling identifies myeloid cell subsets with distinct fates during neuroinflammation
Marta Joana Costa Jordão,Roman Sankowski,Stefanie M. Brendecke,Sagar,Giuseppe Locatelli,Yi-Heng Tai,Tuan Leng Tay,Eva Schramm,Stephan Armbruster,Nora Hagemeyer,Olaf Groß,Dominic Mai,Özgün Çiçek,Thorsten Falk,Martin Kerschensteiner,Dominic Grün,Marco Prinz +16 more
TL;DR: A transcriptional atlas of myeloid subsets in experimental autoimmune encephalomyelitis (EAE), a mouse model of MS, shows that dendritic cells and monocyte-derived cells, but not resident macrophages, played a critical role by presenting antigen to pathogenic T cells, which may inform future therapeutic targeting strategies in MS.
Book ChapterDOI
Uncertainty Estimates and Multi-hypotheses Networks for Optical Flow
TL;DR: In this article, the authors compare several strategies and techniques to estimate uncertainty in a large-scale computer vision task like optical flow estimation, and introduce a new network architecture and loss function that enforce complementary hypotheses and provide uncertainty estimates efficiently with a single forward pass and without the need for sampling or ensembles.