Publications

Nataša Tagasovska, Firat Ozdemir, Axel Brando (2023). Retrospective Uncertainties for Deep Models using Vine Copulas. International Conference on Artificial Intelligence and Statistics.

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Firat Ozdemir, Berkan Lafci, Xose Luis Dean-Ben, Daniel Razansky, Fernando Perez-Cruz (2023). OADAT: Experimental and Synthetic Clinical Optoacoustic Data for Standardized Image Processing. Transactions on Machine Learning Research.

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Artur Safin, Damien Bouffard, Firat Ozdemir, Cintia L Ramón, James Runnalls, Fotis Georgatos, Camille Minaudo, Jonas Šukys (2022). SPUX-MITgcm v1.

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Anna Klimovskaia Susmelj, Berkan Lafci, Firat Ozdemir, Neda Davoudi, Xose Luis Dean-Ben, Fernando Perez-Cruz, Daniel Razansky (2022). Signal Domain Learning Approach for Optoacoustic Image Reconstruction from Limited View Data. International Conference on Medical Imaging with Deep Learning.

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Carlo Albert, Simone Ulzega, Firat Ozdemir, Fernando Perez-Cruz, Antonietta Mira (2022). Learning summary statistics for bayesian inference with autoencoders. SciPost Physics Core.

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Guillaume Bertoli, Sebastian Schemm, Firat Ozdemir, Eniko Szekely, Fernando Perez-Cruz (2022). Building a physics-constrained, fast and stable machine learning-based radiation emulator.

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Artur Safin, Damien Bouffard, Firat Ozdemir, Cintia L Ramón, James Runnalls, Fotis Georgatos, Camille Minaudo, Jonas Šukys (2022). A Bayesian data assimilation framework for lake 3D hydrodynamic models with a physics-preserving particle filtering method using SPUX-MITgcm v1. Geoscientific Model Development.

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Anna Klimovskaia, Berkan Lafci, Firat Ozdemir, Neda Davoudi, Xose Luis Dean-Ben, Fernando Perez-Cruz, Daniel Razansky (2021). Signal domain learning approach for optoacoustic image reconstruction from limited view data. Medical Imaging with Deep Learning.

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Michael Stalder, Firat Ozdemir, Artur Safin, Jonas Šukys, Damien Bouffard, Fernando Perez-Cruz (2021). Probabilistic modeling of lake surface water temperature using a Bayesian spatio-temporal graph convolutional neural network. arXiv preprint arXiv:2109.13235.

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Firat Ozdemir, Zixuan Peng, Philipp Fuernstahl, Christine Tanner, Orcun Goksel (2021). Active learning for segmentation based on Bayesian sample queries. Knowledge-Based Systems.

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Artur Safin, Ramón Casañas, Cintia Luz, Juan Cubero Cardoso, Antonio Serrano Moral, Susanna Gorrasi, Barbara Muñoz Palazón, Elisabet Aranda Ballesteros (2021). A Bayesian data assimilation framework for lake 3D hydrodynamic models with a physics-preserving particle filtering method using SPUX-MITgcm v1. Geosci Model Dev Discuss.

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Firat Ozdemir (2020). Medical Image Segmentation with Efficient Use of Annotations and Resources.

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Firat Ozdemir, Christine Tanner, Orcun Goksel (2020). Delineating Bone Surfaces in B-Mode Images Constrained by Physics of Ultrasound Propagation. arXiv preprint arXiv:2001.02001.

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Artur Safin, Damien Bouffard, James Runnalls, Fotis Georgatos, Eric Bouillet, Firat Ozdemir, Fernando Perez-Cruz, Jonas Šukys (2020). Data assimilation in lake Geneva using the SPUX framework. EGU General Assembly Conference Abstracts.

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Firat Ozdemir, Orcun Goksel (2019). Extending pretrained segmentation networks with additional anatomical structures. International journal of computer assisted radiology and surgery.

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Matija Ciganovic, Firat Ozdemir, Mazda Farshad, Orcun Goksel (2019). Deep learning techniques for bone surface delineation in ultrasound. Medical Imaging 2019: Ultrasonic Imaging and Tomography.

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Matija Ciganovic, Firat Ozdemir, Fabien Pean, Philipp Fuernstahl, Christine Tanner, Orcun Goksel (2018). Registration of 3D freehand ultrasound to a bone model for orthopedic procedures of the forearm. International journal of computer assisted radiology and surgery.

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Firat Ozdemir, Philipp Fuernstahl, Orcun Goksel (2018). Learn the new, keep the old: Extending pretrained models with new anatomy and images. Medical Image Computing and Computer Assisted Intervention–MICCAI 2018: 21st International Conference, Granada, Spain, September 16-20, 2018, Proceedings, Part IV 11.

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Christine Tanner, Firat Ozdemir, Romy Profanter, Valeriy Vishnevsky, Ender Konukoglu, Orcun Goksel (2018). Generative adversarial networks for MR-CT deformable image registration. arXiv preprint arXiv:1807.07349.

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Firat Ozdemir, Zixuan Peng, Christine Tanner, Philipp Fuernstahl, Orcun Goksel (2018). Active learning for segmentation by optimizing content information for maximal entropy. Deep Learning in Medical Image Analysis and Multimodal Learning for Clinical Decision Support: 4th International Workshop, DLMIA 2018, and 8th International Workshop, ML-CDS 2018, Held in Conjunction with MICCAI 2018, Granada, Spain, September 20, 2018, Proceedings 4.

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Firat Ozdemir, Neerav Karani, Philipp Fürnstahl, Orcun Goksel (2017). Interactive segmentation in MRI for orthopedic surgery planning: bone tissue. International journal of computer assisted radiology and surgery.

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Janine Thoma, Firat Ozdemir, Orcun Goksel (2017). Automatic segmentation of abdominal MRI using selective sampling and random walker. Medical Computer Vision and Bayesian and Graphical Models for Biomedical Imaging: MICCAI 2016 International Workshops, MCV and BAMBI, Athens, Greece, October 21, 2016, Revised Selected Papers 8.

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Firat Ozdemir, Ece Ozkan, Orcun Goksel (2016). Graphical modeling of ultrasound propagation in tissue for automatic bone segmentation. Medical Image Computing and Computer-Assisted Intervention–MICCAI 2016: 19th International Conference, Athens, Greece, October 17-21, 2016, Proceedings, Part II 19.

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Farhood Negin, Fırat Özdemir, Ceyhun Burak Akgül, Kamer Ali Yüksel, Aytül Erçil (2013). A decision forest based feature selection framework for action recognition from rgb-depth cameras. Image Analysis and Recognition: 10th International Conference, ICIAR 2013, Póvoa do Varzim, Portugal, June 26-28, 2013. Proceedings 10.

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