Publications
Robust Image Segmentation Models
Understanding how architectural choices affect model reliability across diverse clinical conditions.
The impact of U-Net architecture choices and skip connections on the robustness of segmentation across texture variations
Amith Kamath, Jonas Willmann, Nicolaus Andratschke, Mauricio Reyes
Computers in Biology and Medicine, 2025 | Impact Factor: 6.3 (2024), Acceptance Rate: 12%
🏷️ Themes: Robustness, Architecture Design, Clinical Deployment
pdf | code | project page
Do we really need that skip-connection? understanding its interplay with task complexity
Amith Kamath, Jonas Willmann, Nicolaus Andratschke, Mauricio Reyes
MICCAI 2023 | International Conference on Medical Image Computing and Computer-Assisted Intervention | Early accept: 14% 🏆 Uni Bern BME Club Travel Award Winner
🏷️ Themes: Robustness, Architecture Design, Task Complexity
pdf | code | video | project page
How do 3D image segmentation networks behave across the context versus foreground ratio trade-off?
Amith Kamath, Yannick Suter, Suhang You, Michael Mueller, Jonas Willmann, Nicolaus Andratschke, Mauricio Reyes
Medical Imaging Meets NeurIPS Workshop, NeurIPS 2022
🏷️ Themes: Robustness, 3D Segmentation, Context vs Class Balance
pdf | code | project page
Evaluating Contour Correction Efficiency
Predicting the impact of target volume contouring variations on the organ at risk dose: results of a qualitative survey
Jonas Willmann, Amith Kamath, Robert Poel, Elena Riggenbach, Lucas Mose, Jenny Bertholet, Silvan Muller, Daniel Schmidhalter, Nicolaus Andratschke, Ekin Ermiş, et al.
Radiotherapy and Oncology, 2025 | Impact Factor: 5.3
🏷️ Themes: Dose Prediction, Clinical Validation, Expert Assessment
pdf | project page
AutoDoseRank: Automated Dosimetry-Informed Segmentation Ranking for Radiotherapy
Zahira Mercado, Amith Kamath, Robert Poel, Jonas Willmann, Ekin Ermiş, Elena Riggenbach, Lucas Mose, Nicolaus Andratschke, Mauricio Reyes
MICCAI Workshop on Cancer Prevention through Early Detection, 2024
🏷️ Themes: Quality Assurance, Automated Ranking, Clinical Deployment
pdf | code | project page
Comparing the Performance of Radiation Oncologists versus a Deep Learning Dose Predictor to Estimate Dosimetric Impact of Segmentation Variations for Radiotherapy
Amith Kamath, Zahira Mercado, Robert Poel, Jonas Willmann, Ekin Ermiş, Elena Riggenbach, Nicolaus Andratschke, Mauricio Reyes
MIDL 2024 | Medical Imaging with Deep Learning (Oral - 18% acceptance rate)
🏷️ Themes: Dose Prediction, Human-AI Comparison, Clinical Decision Making
pdf | code | video | project page
ASTRA: Atomic Surface Transformations for Radiotherapy quality Assurance
Amith Kamath, Robert Poel, Jonas Willmann, Ekin Ermiş, Nicolaus Andratschke, Mauricio Reyes
IEEE EMBC 2023 | 45th IEEE Engineering in Medicine and Biology Conference
🏆 2nd Best Student Paper Award Winner
🏷️ Themes: Quality Assurance, Dose-Aware Evaluation, Sensitivity Maps
pdf | code | video | project page
Fast Treatment Planning Dose Proposal
Deep-learning-based dose predictor for glioblastoma–assessing the sensitivity and robustness for dose awareness in contouring Robert Poel, Amith J Kamath, Jonas Willmann, Nicolaus Andratschke, Ekin Ermiş, Daniel M Aebersold, Peter Manser, Mauricio Reyes Cancers, 2023
🏷️ Themes: Dose Prediction, Model Sensitivity, Robustness
pdf | project page
How sensitive are Deep Learning based Radiotherapy Dose Prediction Models to Variability in Organs at Risk Segmentation?
Amith Kamath, Robert Poel, Jonas Willmann, Nicolaus Andratschke, Mauricio Reyes
IEEE ISBI 2023 | 20th IEEE International Symposium on Biomedical Imaging
🏷️ Themes: Dose Prediction, Model Sensitivity, Robustness
pdf | code | video | project page
Software & Tools
PyRaDiSe: A Python package for DICOM-RT-based auto-segmentation pipeline construction and DICOM-RT data conversion
Elias Rüfenacht, Amith Kamath, Yannick Suter, Robert Poel, Ekin Ermiş, Stefan Scheib, Mauricio Reyes
Computer Methods and Programs in Biomedicine, 2023
> 50 stars on GitHub (as of 2026)
🏷️ Themes: Software Development, Clinical Tools, DICOM-RT
pdf | code
Journal Articles
J7. The impact of U-Net architecture choices and skip connections on the robustness of segmentation across texture variations
Computers in Biology and Medicine, 2025
J6. Predicting the impact of target volume contouring variations on the organ at risk dose: results of a qualitative survey
Radiotherapy and Oncology, 2025
J5. Efficient review of automatic contouring of OARs in the brain: A dual-layer quality assurance approach combining geometric and dosimetric validation
Radiotherapy and Oncology, 2025
J4. Orchestrating explainable artificial intelligence for multimodal and longitudinal data in medical imaging
NPJ Digital Medicine, 2024
J3. DreamOn: a data augmentation strategy to narrow the robustness gap between expert radiologists and deep learning classifiers
Frontiers in Radiology, 2024
J2. Deep-Learning-Based Dose Predictor for Glioblastoma–Assessing the Sensitivity and Robustness for Dose Awareness in Contouring
Cancers, 2023
J1. PyRaDiSe: A Python package for DICOM-RT-based auto-segmentation pipeline construction and DICOM-RT data conversion
Computer Methods and Programs in Biomedicine, 2023
Conference Proceedings
C6. Comparing the Performance of Radiation Oncologists versus a Deep Learning Dose Predictor to Estimate Dosimetric Impact of Segmentation Variations for Radiotherapy
Medical Imaging with Deep Learning (MIDL), 2024
C5. Do we really need that skip-connection? understanding its interplay with task complexity
International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI), 2023
C4. Dose Guidance for Radiotherapy-oriented Deep Learning Segmentation
International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI), 2023
C3. ASTRA: Atomic Surface Transformations for Radiotherapy quality Assurance
45th IEEE Engineering in Medicine and Biology Conference (EMBC), 2023
C2. How sensitive are Deep Learning based Radiotherapy Dose Prediction Models to Variability in Organs at Risk Segmentation?
20th IEEE International Symposium on Biomedical Imaging (ISBI), 2023
C1. A novel device to monitor mobilization of fingers during treatment for stiffness of tendons
5th International Conference on Industrial and Information Systems (ICIIS), 2010
Workshops & Abstracts
W5. AutoDoseRank: Automated Dosimetry-Informed Segmentation Ranking for Radiotherapy
MICCAI Workshop on Cancer Prevention through Early Detection, 2024
W4. How do 3D image segmentation networks behave across the context versus foreground ratio trade-off?
Medical Imaging Meets NeurIPS Workshop, 2022
W3. Evaluating a deep learning based 3D dose prediction model for quality assurance of organ at risk contours
55th Swiss Society for Radiobiology and Medical Physics (SSRMP), 2022
W2. Optimal Acquisition Protocol for White Matter Fiber Orientation Mapping Using Generalized CSA-ODF Reconstruction
21st Annual Meeting and Exhibition of the ISMRM, 2013
W1. Generalized constant solid angle odf and optimal acquisition protocol for fiber orientation mapping
MICCAI Workshop on Computational Diffusion MRI, 2012
Theses
T2. Fast and Reliable Dosimetric Contour QA
PhD Thesis, University of Bern, 2025
T1. A generalized CSA-ODF model for Fiber Orientation Mapping
Master’s Thesis, University of Minnesota, 2012