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Mechanosensitive PIEZO2 channels shape coronary artery development.
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Nature Cardiovascular Research 4
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Do transformers and CNNs learn different concepts of brain age?
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Content-based image retrieval assists radiologists in diagnosing eye and orbital mass lesions in MRI.
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Scientific Reports 15
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2 April 2025
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Schintke, F., Belhajjame, K., De Mecquenem, N., Frantz, D., Guarino, V.E. ORCID: https://orcid.org/0000-0003-1625-4323, Hilbrich, M., Lehmann, F., Missier, P., Sattler, R., Sparka, J.A., Speckhard, D.T., Stolte, H., Vu, A.D. and Leser, U.
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Nature Methods 21
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12 February 2024
CoNIC Challenge: Pushing the frontiers of nuclear detection, segmentation, classification and counting.
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Understanding metric-related pitfalls in image analysis validation.
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Nature Methods 21
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February 2024
Heat in Germany: Health risks and preventive measures.
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Journal of Health Monitoring 8
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6 September 2023
Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering.
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Nature Communications 14
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A searchable image resource of Drosophila GAL4-driver expression patterns with single neuron resolution.
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eLife 12
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23 February 2023
Automated reconstruction of whole-embryo cell lineages by learning from sparse annotations.
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Nature Biotechnology 44
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January 2023
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European Respiratory Journal 60
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A comparative study of graph matching algorithms in computer vision.
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Lecture Notes in Computer Science 13683
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Data augmentation via partial nonlinear registration for brain-age prediction.
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The Collaborative Research Center FONDA.
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Probabilistic deep learning for instance segmentation.
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: 445-457.
2021
Mouse embryonic stem cells self-organize into trunk-like structures with neural tube and somites.
Veenvliet, J.V. ORCID: https://orcid.org/0000-0002-1191-2975, Bolondi, A. ORCID: https://orcid.org/0000-0002-1096-9435, Kretzmer, H. ORCID: https://orcid.org/0000-0002-0723-4980, Haut, L., Scholze-Wittler, M., Schifferl, D. ORCID: https://orcid.org/0000-0003-3507-5734, Koch, F., Guignard, L. ORCID: https://orcid.org/0000-0002-3686-1385, Kumar, A.S., Pustet, M., Heimann, S. ORCID: https://orcid.org/0000-0001-8647-1644, Buschow, R. ORCID: https://orcid.org/0000-0002-9800-2578, Wittler, L., Timmermann, B., Meissner, A. ORCID: https://orcid.org/0000-0001-8646-7469 and Herrmann, B.G. ORCID: https://orcid.org/0000-0002-2192-8188
Science 370
(6522): eaba4937.
11 December 2020
PatchPerPix for instance segmentation.
Mais, L. ORCID: https://orcid.org/0000-0002-9281-2668, Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310 and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
Lecture Notes in Computer Science 12370
: 288-304.
20 November 2020
A connectome and analysis of the adult Drosophila central brain.
Scheffer, L.K., Xu, C.S., Januszewski, M., Lu, Z., Takemura, S.Y., Hayworth, K.J., Huang, G.B., Shinomiya, K., Maitlin-Shepard, J., Berg, S., Clements, J., Hubbard, P.M., Katz, W.T., Umayam, L., Zhao, T., Ackerman, D., Blakely, T., Bogovic, J., Dolafi, T., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Kawase, T., Khairy, K.A., Leavitt, L., Li, P.H., Lindsey, L., Neubarth, N., Olbris, D.J., Otsuna, H., Trautman, E.T., Ito, M., Bates, A.S., Goldammer, J., Wolff, T., Svirskas, R., Schlegel, P., Neace, E.R., Knecht, C.J., Alvarado, C.X., Bailey, D.A., Ballinger, S., Borycz, J.A., Canino, B.S., Cheatham, N., Cook, M., Dreher, M., Duclos, O., Eubanks, B., Fairbanks, K., Finley, S., Forknall, N., Francis, A., Hopkins, G.P., Joyce, E.M., Kim, S.J., Kirk, N.A., Kovalyak, J., Lauchie, S.A., Lohff, A., Maldonado, C., Manley, E.A., McLin, S., Mooney, C., Ndama, M., Ogundeyi, O., Okeoma, N., Ordish, C., Padilla, N., Patrick, C., Paterson, T., Phillips, E.E., Phillips, E.M., Rampally, N., Ribeiro, C., Robertson, M.K., Rymer, J.T., Ryan, S.M., Sammons, M., Scott, A.K., Scott, A.L., Shinomiya, A., Smith, C., Smith, K., Smith, N.L., Sobeski, M.A., Suleiman, A., Swift, J., Takemura, S., Talebi, I., Tarnogorska, D., Tenshaw, E., Tokhi, T., Walsh, J.J., Yang, T., Horne, J.A., Li, F., Parekh, R., Rivlin, P.K., Jayaraman, V., Costa, M., Jefferis, G.S.X.E., Ito, K., Saalfeld, S., George, R., Meinertzhagen, I.A., Rubin, G.M., Hess, H.F., Jain, V. and Plaza, S.M.
eLife 9
: e57443.
7 September 2020
Artificial-intelligence-driven scanning probe microscopy.
Krull, A., Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Rother, C., Schiffrin, A. ORCID: https://orcid.org/0000-0003-1140-8485 and Krull, C.
Communications Physics 3
(1): 54.
19 March 2020
The cell adhesion protein CAR is a negative regulator of synaptic transmission.
Wrackmeyer, U., Kaldrack, J., Jüttner, R. ORCID: https://orcid.org/0000-0003-3565-0698, Pannasch, U. ORCID: https://orcid.org/0000-0001-6502-1046, Gimber, N. ORCID: https://orcid.org/0000-0001-9456-3063, Freiberg, F., Purfürst, B. ORCID: https://orcid.org/0000-0002-9887-7577, Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Schmitz, D. ORCID: https://orcid.org/0000-0003-2741-5241, Haucke, V. ORCID: https://orcid.org/0000-0003-3119-6993, Rathjen, F.G. ORCID: https://orcid.org/0000-0001-5351-613X and Gotthardt, M. ORCID: https://orcid.org/0000-0003-1788-3172
Scientific Reports 9
(1): 6768.
1 May 2019
A benchmark for epithelial cell tracking.
Funke, J., Mais, L. ORCID: https://orcid.org/0000-0002-9281-2668, Champion, A., Dye, N. and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
Lecture Notes in Computer Science 11134
: 437-445.
23 January 2019
Cell dynamics underlying oriented growth of the Drosophila wing imaginal disc.
Dye, N.A. ORCID: https://orcid.org/0000-0002-4859-6670, Popović, M. ORCID: https://orcid.org/0000-0003-2360-3982, Spannl, S., Etournay, R. ORCID: https://orcid.org/0000-0002-2441-9274, Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Ghosh, S., Myers, E.W. ORCID: https://orcid.org/0000-0002-6580-7839, Jülicher, F. ORCID: https://orcid.org/0000-0003-4731-9185 and Eaton, S.
Development 144
(23): 4406-4421.
1 December 2017
GPU-accelerated level-set segmentation.
Lamas-Rodríguez, J., Heras, D.B., Argüello, F., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Zachow, S. and Bóo, M.
Journal of Real-Time Image Processing 12
(1): 15-29.
June 2016
Automated detection and quantification of single RNAs at cellular resolution in zebrafish embryos.
Stapel, L.C. ORCID: https://orcid.org/0000-0003-0808-5005, Lombardot, B., Broaddus, C., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Jug, F., Myers, E.W. and Vastenhouw, N.L.
Development 143
(3): 540-546.
1 February 2016
Uncertainty-driven forest predictors for vertebra localization and segmentation.
Richmond, D., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Glocker, B., Rother, C. and Myers, G.
Lecture Notes in Computer Science 9349
: 653-660.
2015
Active graph matching for automatic joint segmentation and annotation of C. elegans.
Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Jug, F., Rother, C. and Myers, G.
Lecture Notes in Computer Science 8673
: 81-88.
2014
Optimal joint segmentation and tracking of escherichia coli in the mother machine.
Jug, F., Pietzsch, T., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Funke, J., Kaiser, M., van Nimwegen, E., Rother, C. and Myers, G.
Lecture Notes in Computer Science 8677
: 25-36.
2014
Omnidirectional displacements for deformable surfaces.
Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Lamecker, H., Heller, M.O. ORCID: https://orcid.org/0000-0002-7879-1135, Weber, B., Hege, H.C. and Zachow, S.
Medical Image Analysis 17
(4): 429-441.
May 2013
Automatic detection and classification of teeth in CT data.
Duy, N.T., Lamecker, H., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415 and Zachow, S.
Lecture Notes in Computer Science 7510
: 609-616.
2012
An articulated statistical shape model of the human knee.
Bindernagel, M., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Seim, H., Lamecker, H., Zachow, S. and Hege, H.C.
Informatik aktuell
: 59-63.
2011
3D reconstruction of the human rib cage from 2D projection images using a statistical shape model.
Dworzak, J., Lamecker, H., von Berg, J., Klinder, T., Lorenz, C., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Seim, H., Hege, H.C. and Zachow, S.
International Journal of Computer Assisted Radiology and Surgery 5
(2): 111-124.
March 2010
Improving deformable surface meshes through omni-directional displacements and MRFs.
Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Lamecker, H., Seim, H., Zachow, S. and Hege, H.C.
Lecture Notes in Computer Science 6361
: 227-234.
2010
Comparison and evaluation of methods for liver segmentation from CT datasets.
Heimann, T., van Ginneken, B., Styner, M.A., Arzhaeva, Y., Aurich, V., Bauer, C., Beck, A., Becker, C., Beichel, R., Bekes, G., Bello, F., Binnig, G., Bischof, H., Bornik, A., Cashman, P.M.M., Chi, Y., Cordova, A., Dawant, B.M., Fidrich, M., Furst, J.D., Furukawa, D., Grenacher, L., Hornegger, J., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Kitney, R.I., Kobatake, H., Lamecker, H., Lange, T., Lee, J., Lennon, B., Li, R., Li, S., Meinzer, H.P., Nemeth, G., Raicu, D.S., Rau, A.M., van Rikxoort, E.M., Rousson, M., Rusko, L., Saddi, K.A., Schmidt, G., Seghers, D., Shimizu, A., Slagmolen, P., Sorantin, E., Soza, G., Susomboon, R., Waite, J.M., Wimmer, A. and Wolf, I.
IEEE Transactions on Medical Imaging 28
(8): 1251-1265.
August 2009
Automatic extraction of mandibular nerve and bone from cone-beam CT data.
Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Lamecker, H., Seim, H., Zinser, M. and Zachow, S.
Lecture Notes in Computer Science 5762
: 76-83.
2009
Coupling deformable models for multi-object segmentation.
Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Lamecker, H., Zachow, S. and Hege, H.C.
Lecture Notes in Computer Science 5104
: 69-78.
2008
Level set segmentation of the heart from 4D phase contrast MRI.
Kainmuller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Unterhinninghofen, R., Ley, S. and Dillmann, R.
Proceedings of SPIE 6914
: 691414.
2008
Book Section
Mathematical and bioinformatic tools for cell tracking.
Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Epstein, L. and Guignard, L. ORCID: https://orcid.org/0000-0002-3686-1385
In:
Cell Movement in Health and Disease.
Academic Press, London, 341-361.
ISBN 978-0-323-90195-6
2022
Conference or Workshop Item
Cycle-consistent multi-graph matching for self-supervised annotation of C.Elegans.
Stricker, Sebastian, Karg, Christoph, Hutschenreiter, Lisa, Savchynskyy, Bogdan and Kainmueller, Dagmar ORCID: https://orcid.org/0000-0002-9830-2415
In: 2026 IEEE/CVF Winter Conference on Applications of Computer Vision (WACV), 06-10 Mar 2026, Tucson, AZ, USA.
6 March 2026
SelfAdapt: unsupervised domain adaptation of cell segmentation models.
Reith, Fabian H. ORCID: https://orcid.org/0000-0002-0745-2726, Franzen, Jannik ORCID: https://orcid.org/0000-0002-0761-641X, Rumberger, J. Lorenz ORCID: https://orcid.org/0000-0002-7225-7011 and Kainmueller, Dagmar ORCID: https://orcid.org/0000-0002-9830-2415
In: 2025 IEEE/CVF International Conference on Computer Vision Workshops (ICCVW), 19-20 Oct 2025, Honolulu, HI, USA.
23 February 2026
Arctique: an artificial histopathological dataset unifying realism and controllability for uncertainty quantification.
Franzen, J. ORCID: https://orcid.org/0000-0002-0761-641X, Winklmayr, C. ORCID: https://orcid.org/0000-0002-8784-2301, Guarino, V.E. ORCID: https://orcid.org/0000-0003-1625-4323, Karg, C., Yu, X., Koreuber, N. ORCID: https://orcid.org/0009-0003-9328-4590, Albrecht, J.P. ORCID: https://orcid.org/0000-0002-3792-9695, Bischoff, P. and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: 38th Conference on Neural Information Processing Systems, NeurIPS 2024, 09-15 Dec 2024, Vancouver, BC, Canada.
February 2025
FISBe: a real-world benchmark dataset for instance segmentation of long-range thin filamentous structures.
Mais, L. ORCID: https://orcid.org/0000-0002-9281-2668, Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Managan, Claire, Kandarpa, Ramya, Rumberger, J.L. ORCID: https://orcid.org/0000-0002-7225-7011, Reinke, Annika, Maier-Hein, Lena, Ihrke, Gudrun and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: 2024 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), 16-22 June 2024, Seattle, WA, USA.
16 September 2024
Simultaneous lung cell and nucleus segmentation from labelled versus unlabelled human lung DIC images.
Dohmen, M. ORCID: https://orcid.org/0000-0002-4447-0579, Mittermaier, M., Rumberger, J.L. ORCID: https://orcid.org/0000-0002-7225-7011, Yang, L.L., Gruber, A.D., Toennies, M., Hippenstiel, S., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415 and Hocke, A.C.
In: 2024 IEEE International Symposium on Biomedical Imaging (ISBI), 27-30 May 2024, Athens, Greece.
22 August 2024
Model guidance via explanations turns image classifiers into segmentation models.
Yu, X. ORCID: https://orcid.org/0000-0001-8196-663X, Franzen, J. ORCID: https://orcid.org/0000-0002-0761-641X, Samek, W. ORCID: https://orcid.org/0000-0002-6283-3265, Höhne, M.M.C. ORCID: https://orcid.org/0000-0003-3090-6279 and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: Second World Conference, xAI 2024, July 17–19, 2024, Valletta, Malta.
10 July 2024
TLIMB - a transfer learning framework for image analysis of the brain.
Schulz, M.A., Albrecht, J.P. ORCID: https://orcid.org/0000-0002-3792-9695, Yilmaz, A., Koch, A., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Leser, U. and Ritter, K.
In: Workshops of the EDBT/ICDT 2024 Joint Conference, EDBT/ICDT-WS 2024, 25-28 March 2024, Paestum, Italy.
25 March 2024
HoVer-NeXt: a fast nuclei segmentation and classification pipeline for next generation histopathology.
Baumann, E., Dislich, B., Rumberger, J.L. ORCID: https://orcid.org/0000-0002-7225-7011, Nagtegaal, I.D., Martínez, M.R. and Zlobec, I.
In: 7th International Conference on Medical Imaging with Deep Learning, 03-05 Jul 2024, Paris, France.
2024
ACTIS: improving data efficiency by leveraging semi-supervised augmentation consistency training for instance segmentation.
Rumberger, J.L. ORCID: https://orcid.org/0000-0002-7225-7011, Franzen, J. ORCID: https://orcid.org/0000-0002-0761-641X, Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Albrecht, J.P. ORCID: https://orcid.org/0000-0002-3792-9695 and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: 2023 IEEE/CVF International Conference on Computer Vision Workshops (ICCVW), 02-06 Oct 2023, Paris, France.
25 December 2023
Towards hierarchical regional transformer-based multiple instance learning.
Cersovsky, J., Mohammadi, S., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415 and Hoehne, J.
In: 2023 IEEE/CVF International Conference on Computer Vision Workshops (ICCVW), 02-06 Oct 2023, Paris, France.
25 December 2023
Panoptic segmentation with highly imbalanced semantic labels.
Rumberger, J.L. ORCID: https://orcid.org/0000-0002-7225-7011, Baumann, E., Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Janowczyk, A., Zlobec, I. and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: 2022 IEEE International Symposium on Biomedical Imaging Challenges (ISBIC), 28-31 March 2022, Kolkata, India.
17 August 2022
Fusion moves for graph matching.
Hutschenreiter, L., Haller, S., Feineis, L., Rother, C., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415 and Savchynskyy, B.
In: 2021 IEEE/CVF International Conference on Computer Vision (ICCV), 10-17 Oct 2021, Montreal, QC, Canada.
28 February 2022
How shift equivariance impacts metric learning for instance segmentation.
Rumberger, J.L. ORCID: https://orcid.org/0000-0002-7225-7011, Yu, X., Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Dohmen, M. ORCID: https://orcid.org/0000-0002-4447-0579, Guarino, V.E. ORCID: https://orcid.org/0000-0003-1625-4323, Mokarian, A., Mais, L. ORCID: https://orcid.org/0000-0002-9281-2668, Funke, J. and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: 2021 IEEE/CVF International Conference on Computer Vision (ICCV), 10-17 Oct 2021, Montreal, QC, Canada.
28 February 2022
An auxiliary task for learning nuclei segmentation in 3D microscopy images.
Hirsch, Peter ORCID: https://orcid.org/0000-0002-2353-5310 and Kainmueller, Dagmar ORCID: https://orcid.org/0000-0002-9830-2415
In: Third Conference on Medical Imaging with Deep Learning, 6-8 Jul 2020, Montreal, QC, Canada.
2020
A convex relaxation for multi-graph matching.
Swoboda, P., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Mokarian, A., Theobalt, C. and Bernard, F.
In: 2019 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), 16-20 Jun 2019, Long Beach, CA, USA.
2019
A study of Lagrangean decompositions and dual ascent solvers for graph matching.
Swoboda, P., Rother, C., Alhaija, H.A., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415 and Savchynskyy, B.
In: 2017 IEEE Conference on Computer Vision and Pattern Recognition (CVPR), 21-26 Jul 2017, Honolulu, HI, USA.
9 November 2017
Crowd sourcing image segmentation with iaSTAPLE.
Schlesinger, D., Jug, F., Myers, G., Rother, C. and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: 2017 IEEE 14th International Symposium on Biomedical Imaging (ISBI 2017), 18-21 Apr 2017, Melbourne, VIC, Australia.
19 June 2017
Mapping auto-context decision forests to deep ConvNets for semantic segmentation.
Richmond, D., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Yang, M., Myers, E. and Rother, C.
In: 27th British Machine Vision Conference, BMVC 2016, 19-22 Sep 2016, York, United Kingdom.
September 2016
Convexity shape constraints for image segmentation.
Royer, L.A., Richmond, D.L., Rother, C., Andres, B. and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: IEEE Conference on Computer Vision and Pattern Recognition, 27-30 Jun 2016, Las Vegas, USA.
2016
Partitioning and mapping a fast level-set algorithm on the GPU.
Lamas-Rodriguez, J., Heras, D.B., Arguello, F., Zachow, S. and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
In: The 7th IEEE International Conference on Intelligent Data Acquisition and Advanced Computing Systems: Technology and Applications, 12-14 Sept 2013, Berlin, Germany.
2013
An articulated statistical shape model for accurate hip joint segmentation.
Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Lamecker, H., Zachow, S. and Hege, H.C.
In: 2009 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 3-6 Sep 2009, Minneapolis, MN, USA.
13 September 2009
A system for unsupervised extraction of orthopedic parameters from CT data.
Seim, H., Kainmüller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Lamecker, H. and Zachow, S.
In: INFORMATIK 2009 Im Fokus das Leben: 39. Jahrestagung der Gesellschaft für Informatik e.V. (GI), 28 Sept - 2 Oct 2009, Lübeck, Germany.
2009
Automatic extraction of anatomical landmarks from medical image data: An evaluation of different methods.
Seim, H., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Heller, M., Zachow, S. and Hege, H.C.
In: IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 28 Jun - 1 Jul 2009, Bosten, USA.
2009
Automatic segmentation of the pelvic bones from CT data based on a statistical shape model.
Seim, H., Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415, Heller, M., Lamecker, H., Zachow, S. and Hege, H.C.
In: VCBM 08: Eurographics Workshop on Visual Computing for Biomedicine, 6-7 Oct 2008, Delft, Netherlands.
2008
Book
Deformable meshes for medical image segmentation.
Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
Aktuelle Forschung Medizintechnik - Latest Research in Medical Engineering
.
Springer Vieweg, Wiesbaden.
ISBN 978-3-658-07014-4
2015
Letter
Plasma mediators in patients with severe COVID-19 cause lung endothelial barrier failure.
Michalick, L., Weidenfeld, S., Grimmer, B., Fatykhova, D., Solymosi, P.D., Behrens, F. ORCID: https://orcid.org/0000-0002-6841-4192, Dohmen, M. ORCID: https://orcid.org/0000-0002-4447-0579, Brack, M.C., Schulz, S., Thomasch, E., Simmons, S., Müller-Redetzky, H., Suttorp, N., Kurth, F. ORCID: https://orcid.org/0000-0002-3807-473X, Neudecker, J., Toennies, M., Bauer, T.T., Eggeling, S., Corman, V.M., Hocke, A.C., Witzenrath, M., Hippenstiel, S. and Kuebler, W.M.
European Respiratory Journal 57
(3): 2002384.
11 March 2021
Preprint
Vesselpose: vessel graph reconstruction from learned voxel-wise direction vectors in 3D vascular images.
Palaniappan, Rajalakshmi, Karg, Christoph, Navarro-Arambula, Nemesio, Hirsch, Peter ORCID: https://orcid.org/0000-0002-2353-5310, Kraeker, Kristin ORCID: https://orcid.org/0000-0002-4032-5382, Mais, Lisa ORCID: https://orcid.org/0000-0002-9281-2668 and Kainmueller, Dagmar ORCID: https://orcid.org/0000-0002-9830-2415
arXiv
: 2605.00538v1.
1 May 2026
Better than average: spatially-aware aggregation of segmentation uncertainty improves downstream performance.
Guarino, Vanessa Emanuela ORCID: https://orcid.org/0000-0003-1625-4323, Winklmayr, Claudia ORCID: https://orcid.org/0000-0002-8784-2301, Franzen, Jannik ORCID: https://orcid.org/0000-0002-0761-641X, Rumberger, Josef Lorenz ORCID: https://orcid.org/0000-0002-7225-7011, Pfeuffer, Manuel, Greven, Sonja, Maier-Hein, Klaus, Lüth, Carsten T., Karg, Christoph and Kainmueller, Dagmar ORCID: https://orcid.org/0000-0002-9830-2415
arXiv
: 2603.29941.
31 March 2026
ARI3D: a software for interactive quantification of regions in X-ray CT 3D images.
Albrecht, Jan Phillipp ORCID: https://orcid.org/0000-0002-3792-9695, Godinho, Jose R.A., Hübers, Christina and Schmidt, Deborah ORCID: https://orcid.org/0000-0002-8621-9438
arXiv
: 2508.09849.
13 August 2025
PatchPerPixMatch for automated 3d search of neuronal morphologies in light microscopy.
Mais, L. ORCID: https://orcid.org/0000-0002-9281-2668, Hirsch, P. ORCID: https://orcid.org/0000-0002-2353-5310, Managan, C. ORCID: https://orcid.org/0000-0002-9510-6443, Wang, K., Rokicki, K. ORCID: https://orcid.org/0000-0002-2799-9833, Svirskas, R.R. ORCID: https://orcid.org/0000-0001-8374-6008, Dickson, B.J. ORCID: https://orcid.org/0000-0003-0715-892X, Korff, W. ORCID: https://orcid.org/0000-0001-8396-1533, Rubin, G.M. ORCID: https://orcid.org/0000-0001-8762-8703, Ihrke, G. ORCID: https://orcid.org/0000-0003-4604-735X, Meissner, G.W. ORCID: https://orcid.org/0000-0003-0369-9788 and Kainmueller, D. ORCID: https://orcid.org/0000-0002-9830-2415
bioRxiv
: 2021.07.23.453511.
26 July 2021
Dataset
PET/CT-guided management of immune checkpoint blockade and post-treatment multi-modal profiling in long-term responders with metastatic lung cancer in the National Network Genomic Medicine Lung Cancer Germany (nNGM).
Bischoff, Philip and Franzen, Jannik ORCID: https://orcid.org/0000-0002-0761-641X
[Dataset]
4 December 2025
PathoCell: a benchmark for foundational models in computational pathology.
Reith, F.H. ORCID: https://orcid.org/0000-0002-0745-2726
[Dataset]
September 2025
Pan-Multiplex (Pan-M) dataset.
Rumberger, J.L. ORCID: https://orcid.org/0000-0002-7225-7011
[Dataset]
May 2025
(Submitted)
This list was generated on Sun Jul 12 12:47:54 2026 UTC.
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