André Ferreira

André Ferreira

PhD Candidate

Institute for AI in Medicine, Germany · University of Minho, Portugal

André Ferreira received his Master’s degree in Biomedical Engineering (Medical Informatics) from the University of Minho in 2022, and was awarded best graduate of its School of Engineering for the academic year 2020/2021. He worked at NeuroSpin — Institut des sciences du vivant Frédéric Joliot (CEA) and is now a research assistant at the Institute for Artificial Intelligence in Medicine (IKIM) at University Hospital Essen. His main interests are medical imaging, computer vision, machine and deep learning, and bioinformatics.

Publications

2026

++nnU-Net: Scaling nnU-Net with Prefix-Based Data Augmentation Ana Sofia Ferreira Santos, André Ferreira, Gijs Luijten, Naida Solak, Lisle Faray de Paiva, Behrus Hinrichs-Puladi, Jens Kleesiek, Jan Egger, Victor Alves arXiv — 2026-06 VS-DDPM: Efficient Low-Cost Diffusion Model for Medical Modality Translation Nikoo Moradi, Gijs Luijten, Behrus Hinrichs-Puladi, Jens Kleesiek, Victor Alves, Jan Egger, André Ferreira arXiv — 2026-04-24 Achieving Over 10× Faster Sample Generation with Conditional Denoising Diffusion André Ferreira, Gijs Luijten, Behrus Hinrichs-Puladi, Jens Kleesiek, Victor Alves, Jan Egger Segmentation, Classification, and Synthesis for Brain Tumors and Traumatic Brain Injuries — 2026-04

2025

Comparative Analysis of nnUNet and MedNeXt for Head and Neck Tumor Segmentation in MRI-Guided Radiotherapy Nikoo Moradi, André Ferreira, Behrus Hinrichs-Puladi, Jens Kleesiek, Emad Fatemizadeh, Gijs Luijten, Victor Alves, Jan Egger Head and Neck Tumor Segmentation for MR-Guided Applications — 2025-03-03 GBM-Reservoir: Brain tumor (Glioblastoma Multiforme) MRI dataset collection with ground truth segmentation masks Naida Solak, André Ferreira, Gijs Luijten, Behrus Hinrichs-Puladi, Victor Alves, Jan Egger Data in Brief — 2025-02 MedShapeNet -- A Large-Scale Dataset of 3D Medical Shapes for Computer Vision Jianning Li, Antonio Pepe, Christina Gsaxner, Gijs Luijten, Yuan Jin, Narmada Ambigapathy, Enrico Nasca, Naida Solak, Gian Marco Melito, Afaque Rafique Memon, Xiaojun Chen, Jan Stefan Kirschke, Ezequiel de la Rosa, Patrick Ferdinand Christ, Hongwei Bran Li, David G. Ellis, Michele R. Aizenberg, Sergios Gatidis, Thomas Küstner, Nadya Shusharina, Nicholas Heller, Vincent Andrearczyk, Adrien Depeursinge, Mathieu Hatt, Anjany Sekuboyina, Maximilian Löffler, Hans Liebl, Reuben Dorent, Tom Vercauteren, Jonathan Shapey, Aaron Kujawa, Stefan Cornelissen, Patrick Langenhuizen, Achraf Ben-Hamadou, Ahmed Rekik, Sergi Pujades, Edmond Boyer, Federico Bolelli, Costantino Grana, Luca Lumetti, Hamidreza Salehi, Jun Ma, Yao Zhang, Ramtin Gharleghi, Susann Beier, Eduardo A. Garza-Villarreal, Thania Balducci, Diego Angeles-Valdez, Roberto Souza, Leticia Rittner, Richard Frayne, Yuanfeng Ji, Soumick Chatterjee, Andreas Nürnberger, Joao Pedrosa, Carlos Ferreira, Guilherme Aresta, Antonio Cunha, Aurelio Campilho, Yannick Suter, Jose Garcia, Alain Lalande, Emmanuel Audenaert, Claudia Krebs, Timo Van Leeuwen, Evie Vereecke, Rainer Röhrig, Frank Hölzle, Vahid Badeli, Kathrin Krieger, Matthias Gunzer, Jianxu Chen, Amin Dada, Miriam Balzer, Jana Fragemann, Frederic Jonske, Moritz Rempe, Stanislav Malorodov, Fin Hendrik Bahnsen, Constantin Seibold, Alexander Jaus, Ana Sofia Ferreira Santos, Mariana Lindo, André Ferreira, Victor Alves, Michael Kamp, Amr Abourayya, Felix Nensa, Fabian Hörst, Alexander Brehmer, Lukas Heine, Lars E. Podleska, Matthias A. Fink, Julius Keyl, Konstantinos Tserpes, Moon Kim, Shireen Elhabian, Hans Lamecker, Dzenan Zukic, Beatriz Paniagua, Christian Wachinger, Martin Urschler, Luc Duong, Jakob Wasserthal, Peter F. Hoyer, Oliver Basu, Thomas Maal, Max J. H. Witjes, Ping Luo, Björn Menze, Mauricio Reyes, Christos Davatzikos, Behrus Hinrichs-Puladi, Jens Kleesiek, Jan Egger, Zongwei Zhou, Jiancheng Yang, Chongyu Qu, Tiezheng Zhang, Xiaoxi Chen, Wenxuan Li, Marek Wodzinski, Paul Friedrich, Kangxian Xie, Viet Duc Vu, Christopher Schlachta, Sandrine De Ribaupierre, Rajnikant Patel, Roy Eagleson, Heinrich Mächler, Arcot Sowmya, Vincenzo Ferrari, Florian Dubost, Stefanie Schreiber, Hendrik Mattern, Oliver Speck, Daniel Haehn, Christoph John, Vicky Vandenbossche, Aline Van Oevelen, Kate Duquesne, Hamza Mekhzoum, Jef Vandemeulebroucke, Hauke Heidemeyer, Timo van Meegdenburg, Zdravko Marinov, Paul F. Jäger, Rainer Stiefelhagen, Yannik Hanusrichter, Martin Weßling, Marcel Dudda, Gregor Schiele, Ti-chiun Chang, Seyed-Ahmad Ahmadi, Thomas M. Deserno, Pascal Fua, Alan L. Yuille Biomedical Engineering / Biomedizinische Technik — 2025-02

2024

Brain Tumour Removing and Missing Modality Generation using 3D WDM André Ferreira, Gijs Luijten, Behrus Hinrichs-Puladi, Jens Kleesiek, Victor Alves, Jan Egger arXiv — 2024-12 Improved Multi-Task Brain Tumour Segmentation with Synthetic Data Augmentation André Ferreira, Tiago Jesus, Behrus Hinrichs-Puladi, Jens Kleesiek, Victor Alves, Jan Egger arXiv — 2024-12 How we won BraTS 2023 Adult Glioma challenge? Just faking it! Enhanced Synthetic Data Augmentation and Model Ensemble for brain tumour segmentation André Ferreira, Naida Solak, Jianning Li, Philipp Dammann, Jens Kleesiek, Victor Alves, Jan Egger arXiv — 2024-07 A Baseline Solution for the ISBI 2024 Dreaming Challenge Timo van Meegdenburg, Gijs Luijten, Jens Kleesiek, Behrus Hinrichs-Puladi, André Ferreira, Jan Egger, Christina Gsaxner 2024 IEEE International Symposium on Biomedical Imaging (ISBI) — 2024-05-27 Generalisation of Segmentation Using Generative Adversarial Networks André Ferreira, Gijs Luijten, Behrus Hinrichs-Puladi, Jens Kleesiek, Victor Alves, Jan Egger 2024 IEEE International Symposium on Biomedical Imaging (ISBI) — 2024-05-27 GAN-based generation of realistic 3D volumetric data: A systematic review and taxonomy André Ferreira, Jianning Li, Kelsey L. Pomykala, Jens Kleesiek, Victor Alves, Jan Egger Medical Image Analysis — 2024-04 Deep PCCT: Photon Counting Computed Tomography Deep Learning Applications Review Ana Carolina Alves, André Ferreira, Gijs Luijten, Jens Kleesiek, Behrus Hinrichs-Puladi, Jan Egger, Victor Alves arXiv — 2024-02 Multilingual Natural Language Processing Model for Radiology Reports -- The Summary is all you need! Mariana Lindo, Ana Sofia Ferreira Santos, André Ferreira, Jianning Li, Gijs Luijten, Gustavo Correia, Moon Kim, Benedikt Michael Schaarschmidt, Cornelius Deuschl, Johannes Haubold, Jens Kleesiek, Jan Egger, Victor Alves arXiv — 2024-01-13

2023

Open-source skull reconstruction with MONAI Jianning Li, André Ferreira, Behrus Hinrichs-Puladi, Victor Alves, Michael Kamp, Moon Kim, Felix Nensa, Jens Kleesiek, Seyed-Ahmad Ahmadi, Jan Egger SoftwareX — 2023-07

2022

Radiomics in Head and Neck Cancer Outcome Predictions Maria Gonçalves, Christina Gsaxner, André Ferreira, Jianning Li, Behrus Hinrichs-Puladi, Jens Kleesiek, Jan Egger, Victor Alves Diagnostics — 2022-11-08 Open-Source Skull Reconstruction with MONAI Jianning Li, André Ferreira, Behrus Hinrichs-Puladi, Victor Alves, Michael Kamp, Moon Kim, Felix Nensa, Jens Kleesiek, Seyed-Ahmad Ahmadi, Jan Egger arXiv — 2022-11 AutoPET Challenge: Combining nn-Unet with Swin UNETR Augmented by Maximum Intensity Projection Classifier Lars Heiliger, Zdravko Marinov, André Ferreira, Jana Fragemann, Jacob M. Murray, David Kersting, Rainer Stiefelhagen, Jens Kleesiek arXiv — 2022-09 GAN-based generation of realistic 3D data: A systematic review and taxonomy André Ferreira, Jianning Li, Kelsey L. Pomykala, Jens Kleesiek, Victor Alves, Jan Egger arXiv — 2022-07 Generation of Synthetic Rat Brain MRI Scans with a 3D Enhanced Alpha Generative Adversarial Network André Ferreira, Ricardo Magalhães, Sébastien Mériaux, Victor Alves Applied Sciences — 2022-05-11 Generation of Synthetic Data: A Generative Adversarial Networks Approach André Ferreira, Ricardo Magalhães, Victor Alves Big Data Analytics and Artificial Intelligence in the Healthcare Industry — 2022-04