Firas Khader

dblp:284/0430 · DBLP profile ↗
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8ranked-venue papers
0as first author
8since 2021 · last 2024
0000-0001-5089-3589ORCID · corroborated

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 8 · 8 since 2021Graphics, computer vision, multimedia, augmented reality and games · 2 · 2 since 2021
YearPublicationVenuePosition
2024 On Instabilities of Unsupervised Denoising Diffusion Models in Magnetic Resonance Imaging Reconstruction
Sven Nebelung, Firas Khader, Jakob Nikolas Kather, Daniel Truhn
MICCAI (7)3
2024 Joint Multi-task Learning Improves Weakly-Supervised Biomarker Prediction in Computational Pathology
Omar S. M. El Nahhas, Georg Wölflein, Marta Ligero, Tim Lenz, Marko van Treeck, Firas Khader, Daniel Truhn, Jakob Nikolas Kather
MICCAI (4)6
2024 Generating synthetic computed tomography for radiotherapy: SynthRAD2023 challenge report
abstract
Radiation therapy plays a crucial role in cancer treatment, necessitating precise delivery of radiation to tumors while sparing healthy tissues over multiple days. Computed tomography (CT) is integral for treatment planning, offering electron density data crucial for accurate dose calculations. However, accurately representing patient anatomy is challenging, especially in adaptive radiotherapy, where CT is not acquired daily. Magnetic resonance imaging (MRI) provides superior soft-tissue contrast. Still, it lacks electron density information, while cone beam CT (CBCT) lacks direct electron density calibration and is mainly used for patient positioning. Adopting MRI-only or CBCT-based adaptive radiotherapy eliminates the need for CT planning but presents challenges. Synthetic CT (sCT) generation techniques aim to address these challenges by using image synthesis to bridge the gap between MRI, CBCT, and CT. The SynthRAD2023 challenge was organized to compare synthetic CT generation methods using multi-center ground truth data from 1080 patients, divided into two tasks: (1) MRI-to-CT and (2) CBCT-to-CT. The evaluation included image similarity and dose-based metrics from proton and photon plans. The challenge attracted significant participation, with 617 registrations and 22/17 valid submissions for tasks 1/2. Top-performing teams achieved high structural similarity indices (≥0.87/0.90) and gamma pass rates for photon (≥98.1%/99.0%) and proton (≥97.3%/97.0%) plans. However, no significant correlation was found between image similarity metrics and dose accuracy, emphasizing the need for dose evaluation when assessing the clinical applicability of sCT. SynthRAD2023 facilitated the investigation and benchmarking of sCT generation techniques, providing insights for developing MRI-only and CBCT-based adaptive radiotherapy. It showcased the growing capacity of deep learning to produce high-quality sCT, reducing reliance on conventional CT for treatment planning.
Evi M. C. Huijben, Maarten L. Terpstra, Arthur Jr Galapon, Suraj Pai, Adrian Thummerer, Peter J. Koopmans, Manya Afonso, Maureen van Eijnatten, Oliver J. Gurney-Champion, Zeli Chen, Kaiyi Zheng, Chuanpu Li, Haowen Pang, Chuyang Ye, Runqi Wang, Fuxin Fan, Jingna Qiu, Yixing Huang, Juhyung Ha, Jong Sung Park, Alexandra Alain-Beaudoin, Silvain Bériault, Pengxin Yu, Zhanyao Huang, Gengwan Li, Xueru Zhang, Yubo Fan, Bowen Xin, Aaron Nicolson, Lujia Zhong, Zhiwei Deng, Gustav Mueller-Franzes, Firas Khader, Xia Li 0005, Ye Zhang 0039, Cédric Hémon, Valentin Boussot, Shaobin Wang, Derk Mus, Bram Kooiman, Chelsea A. H. Sargeant, Edward G. A. Henderson, Satoshi Kondo, Satoshi Kasai, Reza Karimzadeh, Bulat Ibragimov, Thomas Helfer, Jessica Dafflon, Enpei Wang, Zoltán Perkó, Matteo Maspero
Medical Image Anal.37
2024 Encrypted federated learning for secure decentralized collaboration in cancer image analysis
abstract
Artificial intelligence (AI) has a multitude of applications in cancer research and oncology. However, the training of AI systems is impeded by the limited availability of large datasets due to data protection requirements and other regulatory obstacles. Federated and swarm learning represent possible solutions to this problem by collaboratively training AI models while avoiding data transfer. However, in these decentralized methods, weight updates are still transferred to the aggregation server for merging the models. This leaves the possibility for a breach of data privacy, for example by model inversion or membership inference attacks by untrusted servers. Somewhat-homomorphically-encrypted federated learning (SHEFL) is a solution to this problem because only encrypted weights are transferred, and model updates are performed in the encrypted space. Here, we demonstrate the first successful implementation of SHEFL in a range of clinically relevant tasks in cancer image analysis on multicentric datasets in radiology and histopathology. We show that SHEFL enables the training of AI models which outperform locally trained models and perform on par with models which are centrally trained. In the future, SHEFL can enable multiple institutions to co-train AI models without forsaking data governance and without ever transmitting any decryptable data to untrusted servers.
Daniel Truhn, Soroosh Tayebi Arasteh, Oliver Lester Saldanha, Gustav Mueller-Franzes, Firas Khader, Philip Quirke, Nicholas P. West, Richard Gray 0005, Gordon G. A. Hutchins, Jacqueline A. James, Maurice B. Loughrey, Manuel Salto-Tellez, Hermann Brenner, Alexander Brobeil, Tanwei Yuan, Jenny Chang-Claude, Michael Hoffmeister, Sebastian Foersch, Sebastian Keil, Maximilian Schulze-Hagen, Peter Isfort, Philipp Bruners, Georgios Kaissis, Christiane Kuhl, Sven Nebelung, Jakob Nikolas Kather
Medical Image Anal.5
2024 AIROGS: Artificial Intelligence for Robust Glaucoma Screening Challenge
abstract
The early detection of glaucoma is essential in preventing visual impairment. Artificial intelligence (AI) can be used to analyze color fundus photographs (CFPs) in a cost-effective manner, making glaucoma screening more accessible. While AI models for glaucoma screening from CFPs have shown promising results in laboratory settings, their performance decreases significantly in real-world scenarios due to the presence of out-of-distribution and low-quality images. To address this issue, we propose the Artificial Intelligence for Robust Glaucoma Screening (AIROGS) challenge. This challenge includes a large dataset of around 113,000 images from about 60,000 patients and 500 different screening centers, and encourages the development of algorithms that are robust to ungradable and unexpected input data. We evaluated solutions from 14 teams in this paper and found that the best teams performed similarly to a set of 20 expert ophthalmologists and optometrists. The highest-scoring team achieved an area under the receiver operating characteristic curve of 0.99 (95% CI: 0.98-0.99) for detecting ungradable images on-the-fly. Additionally, many of the algorithms showed robust performance when tested on three other publicly available datasets. These results demonstrate the feasibility of robust AI-enabled glaucoma screening.
Coen de Vente, Koen A. Vermeer, Nicolas Jaccard, He Wang 0016, Hongyi Sun, Firas Khader, Daniel Truhn, Temirgali Aimyshev, Yerkebulan Zhanibekuly, Tien-Dung Le, Adrian Galdran, Miguel Ángel González Ballester, Gustavo Carneiro 0001, Devika R. G., Hrishikesh Panikkasseril Sethumadhavan, Densen Puthussery, Hong Liu 0007, Zekang Yang, Satoshi Kondo, Satoshi Kasai, Ashritha Durvasula, Jónathan Heras, Miguel Ángel Zapata, Teresa Araujo, Guilherme Aresta, Hrvoje Bogunovic, Mustafa Arikan, Yeong Chan Lee, Hyun Bin Cho, Yoon Ho Choi, Abdul Qayyum 0002, Muhammad Imran Razzak, Bram van Ginneken, Hans G. Lemij, Clara I. Sánchez
IEEE Trans. Medical Imaging6
2022 Benchmarking weakly-supervised deep learning pipelines for whole slide classification in computational pathology
Narmin Ghaffari Laleh, Hannah Sophie Muti, Chiara Maria Lavinia Loeffler, Amelie Echle, Oliver Lester Saldanha, Faisal Mahmood 0001, Ming Y. Lu, Christian Trautwein, Rupert Langer, Bastian Dislich, Roman David Bülow, Heike Irmgard Grabsch, Hermann Brenner, Jenny Chang-Claude, Elizabeth Alwers, Titus J. Brinker, Firas Khader, Daniel Truhn, Nadine T. Gaisa, Peter Boor, Michael Hoffmeister, Volkmar Schulz, Jakob Nikolas Kather
Medical Image Anal.17
2022 Erratum to 'Benchmarking weakly-supervised deep learning pipelines for whole slide classification in computational pathology' Medical Image Analysis, Volume 79, July 2022, 102474
Narmin Ghaffari Laleh, Hannah Sophie Muti, Chiara Maria Lavinia Loeffler, Amelie Echle, Oliver Lester Saldanha, Faisal Mahmood 0001, Ming Y. Lu, Christian Trautwein, Rupert Langer, Bastian Dislich, Roman David Bülow, Heike Irmgard Grabsch, Hermann Brenner, Jenny Chang-Claude, Elizabeth Alwers, Titus J. Brinker, Firas Khader, Daniel Truhn, Nadine T. Gaisa, Peter Boor, Michael Hoffmeister, Volkmar Schulz, Jakob Nikolas Kather
Medical Image Anal.17
2021 Multi-Centre, Multi-Vendor and Multi-Disease Cardiac Segmentation: The M&Ms Challenge
abstract
The emergence of deep learning has considerably advanced the state-of-the-art in cardiac magnetic resonance (CMR) segmentation. Many techniques have been proposed over the last few years, bringing the accuracy of automated segmentation close to human performance. However, these models have been all too often trained and validated using cardiac imaging samples from single clinical centres or homogeneous imaging protocols. This has prevented the development and validation of models that are generalizable across different clinical centres, imaging conditions or scanner vendors. To promote further research and scientific benchmarking in the field of generalizable deep learning for cardiac segmentation, this paper presents the results of the Multi-Centre, Multi-Vendor and Multi-Disease Cardiac Segmentation (M&Ms) Challenge, which was recently organized as part of the MICCAI 2020 Conference. A total of 14 teams submitted different solutions to the problem, combining various baseline models, data augmentation strategies, and domain adaptation techniques. The obtained results indicate the importance of intensity-driven data augmentation, as well as the need for further research to improve generalizability towards unseen scanner vendors or new imaging protocols. Furthermore, we present a new resource of 375 heterogeneous CMR datasets acquired by using four different scanner vendors in six hospitals and three different countries (Spain, Canada and Germany), which we provide as open-access for the community to enable future research in the field.
Víctor M. Campello, Polyxeni Gkontra, Cristian Izquierdo, Carlos Martín-Isla, Alireza Sojoudi, Peter M. Full, Klaus H. Maier-Hein, Yao Zhang 0010, Zhiqiang He 0002, Jun Ma 0016, Mario Parreño, Alberto Albiol, Fanwei Kong, Shawn C. Shadden, Jorge Corral Acero, Vaanathi Sundaresan, Mina Saber, Mustafa A. Alattar, Hongwei Li 0004, Bjoern Menze, Firas Khader, Christoph Haarburger, Cian M. Scannell, Mitko Veta, Adam Carscadden, Kumaradevan Punithakumar, Xiao Liu 0037, Sotirios A. Tsaftaris, Xiaoqiong Huang, Xin Yang 0009, Lei Li 0020, Xiahai Zhuang, David Viladés, Martín Luís Descalzo, Andrea Guala 0002, Lucia La Mura, Matthias G. W. Friedrich, Ria Garg, Julie Lebel, Filipe Henriques, Mahir Karakas, Ersin Çavus, Steffen E. Petersen, Sergio Escalera, Santi Seguí, Jose Rodriguez-Palomares, Karim Lekadir
IEEE Trans. Medical Imaging21