Publications

@article{DBLP:journals/cmpb/FazekasALRMSB25,

title = {SD-LayerNet: Robust and label-efficient retinal layer segmentation 

 via anatomical priors},

author = {Botond Fazekas and Guilherme Aresta and Dmitry A. Lachinov and Sophie Riedl and Julia Mai and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.1016/j.cmpb.2025.108586},

doi = {10.1016/J.CMPB.2025.108586},

year  = {2025},

date = {2025-01-01},

journal = {Comput. Methods Programs Biomed.},

volume = {261},

pages = {108586},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/cmpb/EsengonulAJZBS25,

title = {Quality assessment of optical coherence tomography angiography images 

 with Relative-distance-based Patch Distribution Modeling (R-PaDiM)},

author = {Meltem Esengönül and Teresa Araújo and Natasa Jeremic and Azin Zarghami and Hrvoje Bogunovic and Ursula Schmidt-Erfurth},

url = {https://doi.org/10.1016/j.cmpb.2025.108955},

doi = {10.1016/J.CMPB.2025.108955},

year  = {2025},

date = {2025-01-01},

journal = {Comput. Methods Programs Biomed.},

volume = {271},

pages = {108955},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/npjdm/HollandTHRMPMHMPSBSRSLM25,

title = {Specialized curricula for training vision language models in retinal 

 image analysis},

author = {Robbie Holland and Thomas R. P. Taylor and Christopher Holmes and Sophie Riedl and Julia Mai and Maria Patsiamanidi and Dimitra Mitsopoulou and Paul Hager and Philip Müller and Johannes C. Paetzold and Hendrik P. N. Scholl and Hrvoje Bogunovic and Ursula Schmidt-Erfurth and Daniel Rueckert and Sobha Sivaprasad and Andrew J. Lotery and Martin J. Menten and Toby Prevost and Lars Fritsche and Kristina Pfau and Maximilian Pfau},

url = {https://doi.org/10.1038/s41746-025-01893-8},

doi = {10.1038/S41746-025-01893-8},

year  = {2025},

date = {2025-01-01},

journal = {npj Digit. Medicine},

volume = {8},

number = {1},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/corr/abs-2501-14323,

title = {Automatic detection and prediction of nAMD activity change in retinal 

 OCT using Siamese networks and Wasserstein Distance for ordinality},

author = {Taha Emre and Teresa Araújo and Marzieh Oghbaie and Dmitry A. Lachinov and Guilherme Aresta and Hrvoje Bogunovic},

url = {https://doi.org/10.48550/arXiv.2501.14323},

doi = {10.48550/ARXIV.2501.14323},

year  = {2025},

date = {2025-01-01},

journal = {CoRR},

volume = {abs/2501.14323},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/corr/abs-2506-02976,

title = {Deep Learning for Retinal Degeneration Assessment: A Comprehensive 

 Analysis of the MARIO AMD Progression Challenge},

author = {Rachid Zeghlache and Ikram Brahim and Pierre-Henri Conze and Mathieu Lamard and Mohammed El Amine Lazouni and Elaouaber Zineb Aziza and Leila Ryma Lazouni and Christopher Nielsen and Ahmad O. Ahsan and Matthias Wilms and Nils D. Forkert and Lovre Antonio Budimir and Ivana Zadro Matovinovic and Donik Vrsnak and Sven Loncaric and Philippe Zhang and Weili Jiang and Yihao Li and Yiding Hao and Markus Frohmann and Patrick Binder and Marcel Huber and Taha Emre and Teresa Araújo and Marzieh Oghbaie and Hrvoje Bogunovic and Amerens A. Bekkers and Nina M. Liebergen and Hugo J. Kuijf and Abdul Qayyum and Moona Mazher and Steven A. Niederer and Alberto J. Beltrán-Carrero and Juan J. Gómez-Valverde and Javier Torresano-Rodr'ıguez and Álvaro Caballero-Sastre and Mar'ıa J. Ledesma-Carbayo and Yosuke Yamagishi and Yi Ding and Robin Peretzke and Alexandra Ertl and Maximilian Fischer and Jessica Kächele and Sofiane Zehar and Karim Boukli Hacene and Thomas Monfort and Béatrice Cochener and Mostafa El Habib Daho and Anas-Alexis Benyoussef and Gwenolé Quellec},

url = {https://doi.org/10.48550/arXiv.2506.02976},

doi = {10.48550/ARXIV.2506.02976},

year  = {2025},

date = {2025-01-01},

journal = {CoRR},

volume = {abs/2506.02976},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/corr/abs-2506-08900,

title = {MIRAGE: Multimodal foundation model and benchmark for comprehensive 

 retinal OCT image analysis},

author = {José Morano and Botond Fazekas and Emese Sükei and Ronald Fecso and Taha Emre and Markus Gumpinger and Georg Faustmann and Marzieh Oghbaie and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.48550/arXiv.2506.08900},

doi = {10.48550/ARXIV.2506.08900},

year  = {2025},

date = {2025-01-01},

journal = {CoRR},

volume = {abs/2506.08900},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/corr/abs-2506-10669,

title = {PiPViT: Patch-based Visual Interpretable Prototypes for Retinal Image 

 Analysis},

author = {Marzieh Oghbaie and Teresa Araújo and Hrvoje Bogunovic},

url = {https://doi.org/10.48550/arXiv.2506.10669},

doi = {10.48550/ARXIV.2506.10669},

year  = {2025},

date = {2025-01-01},

journal = {CoRR},

volume = {abs/2506.10669},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/corr/abs-2506-22149,

title = {RetFiner: A Vision-Language Refinement Scheme for Retinal Foundation 

 Models},

author = {Ronald Fecso and José Morano and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.48550/arXiv.2506.22149},

doi = {10.48550/ARXIV.2506.22149},

year  = {2025},

date = {2025-01-01},

journal = {CoRR},

volume = {abs/2506.22149},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/corr/abs-2509-10341,

title = {GARD: Gamma-based Anatomical Restoration and Denoising for Retinal 

 OCT},

author = {Botond Fazekas and Thomas Pinetz and Guilherme Aresta and Taha Emre and Hrvoje Bogunovic},

url = {https://doi.org/10.48550/arXiv.2509.10341},

doi = {10.48550/ARXIV.2509.10341},

year  = {2025},

date = {2025-01-01},

journal = {CoRR},

volume = {abs/2509.10341},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/corr/abs-2509-20864,

title = {SD-RetinaNet: Topologically Constrained Semi-Supervised Retinal Lesion 

 and Layer Segmentation in OCT},

author = {Botond Fazekas and Guilherme Aresta and Philipp Seeböck and Julia Mai and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.48550/arXiv.2509.20864},

doi = {10.48550/ARXIV.2509.20864},

year  = {2025},

date = {2025-01-01},

journal = {CoRR},

volume = {abs/2509.20864},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/access/ArestaAFMSB24,

title = {Interactive Deep Learning-Based Retinal OCT Layer Segmentation Refinement 

 by Regressing Translation Maps},

author = {Guilherme Aresta and Teresa Araújo and Botond Fazekas and Julia Mai and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.1109/ACCESS.2024.3379015},

doi = {10.1109/ACCESS.2024.3379015},

year  = {2024},

date = {2024-01-01},

journal = {IEEE Access},

volume = {12},

pages = {47009–47023},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/cmig/OghbaieASB24,

title = {VLFATRollout: Fully transformer-based classifier for retinal OCT 

 volumes},

author = {Marzieh Oghbaie and Teresa Araújo and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.1016/j.compmedimag.2024.102452},

doi = {10.1016/J.COMPMEDIMAG.2024.102452},

year  = {2024},

date = {2024-01-01},

journal = {Comput. Medical Imaging Graph.},

volume = {118},

pages = {102452},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/eswa/MoranoAB24,

title = {RRWNet: Recursive Refinement Network for effective retinal artery/vein 

 segmentation and classification},

author = {José Morano and Guilherme Aresta and Hrvoje Bogunovic},

url = {https://doi.org/10.1016/j.eswa.2024.124970},

doi = {10.1016/J.ESWA.2024.124970},

year  = {2024},

date = {2024-01-01},

journal = {Expert Syst. Appl.},

volume = {256},

pages = {124970},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/mia/SeebockOMMSB24,

title = {Anomaly guided segmentation: Introducing semantic context for lesion 

 segmentation in retinal OCT using weak context supervision from 

 anomaly detection},

author = {Philipp Seeböck and José Ignacio Orlando and Martin Michl and Julia Mai and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.1016/j.media.2024.103104},

doi = {10.1016/J.MEDIA.2024.103104},

year  = {2024},

date = {2024-01-01},

journal = {Medical Image Anal.},

volume = {93},

pages = {103104},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/mia/HollandLBRFPSSSLRM24,

title = {Metadata-enhanced contrastive learning from retinal optical coherence 

 tomography images},

author = {Robbie Holland and Oliver Leingang and Hrvoje Bogunovic and Sophie Riedl and Lars Fritsche and Toby Prevost and Hendrik P. N. Scholl and Ursula Schmidt-Erfurth and Sobha Sivaprasad and Andrew J. Lotery and Daniel Rueckert and Martin J. Menten},

url = {https://doi.org/10.1016/j.media.2024.103296},

doi = {10.1016/J.MEDIA.2024.103296},

year  = {2024},

date = {2024-01-01},

journal = {Medical Image Anal.},

volume = {97},

pages = {103296},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/titb/MoranoAGSB24,

title = {Deep Multimodal Fusion of Data With Heterogeneous Dimensionality via 

 Projective Networks},

author = {José Morano and Guilherme Aresta and Christoph Grechenig and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.1109/JBHI.2024.3352970},

doi = {10.1109/JBHI.2024.3352970},

year  = {2024},

date = {2024-01-01},

journal = {IEEE J. Biomed. Health Informatics},

volume = {28},

number = {4},

pages = {2235–2246},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/tmi/VenteVJWSKTAZLGBCGSPLYKKWDHZAABALCC24,

title = {AIROGS: Artificial Intelligence for Robust Glaucoma Screening Challenge},

author = {Coen Vente and Koenraad A. Vermeer and Nicolas Jaccard and He Wang and Hongyi Sun and Firas Khader and Daniel Truhn and Temirgali Aimyshev and Yerkebulan Zhanibekuly and Tien-Dung Le and Adrian Galdran and Miguel Ángel González Ballester and Gustavo Carneiro and Devika R. G and Hrishikesh Panikkasseril Sethumadhavan and Densen Puthussery and Hong Liu and Zekang Yang and Satoshi Kondo and Satoshi Kasai and Edward Wang and Ashritha Durvasula and Jónathan Heras and Miguel Ángel Zapata and Teresa Araújo and Guilherme Aresta and Hrvoje Bogunovic and Mustafa Arikan and Yeong Chan Lee and Hyun Bin Cho and Yoon Ho Choi and Abdul Qayyum and Imran Razzak and Bram Ginneken and Hans G. Lemij and Clara I. Sánchez},

url = {https://doi.org/10.1109/TMI.2023.3313786},

doi = {10.1109/TMI.2023.3313786},

year  = {2024},

date = {2024-01-01},

journal = {IEEE Trans. Medical Imaging},

volume = {43},

number = {1},

pages = {542–557},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DBLP:journals/tmi/LachinovCGSB24,

title = {Learning Spatio-Temporal Model of Disease Progression With NeuralODEs 

 From Longitudinal Volumetric Data},

author = {Dmitrii A. Lachinov and Arunava Chakravarty and Christoph Grechenig and Ursula Schmidt-Erfurth and Hrvoje Bogunovic},

url = {https://doi.org/10.1109/TMI.2023.3330576},

doi = {10.1109/TMI.2023.3330576},

year  = {2024},

date = {2024-01-01},

journal = {IEEE Trans. Medical Imaging},

volume = {43},

number = {3},

pages = {1165–1179},

keywords = {},

pubstate = {published},

tppubtype = {article}

}