Topic: SNSF VISIBLE - HES SO Valais Publications

Michael T. McCann, Vincent Andrearczyk, Michael Unser and Adrien Depeursinge, Fast Rotational Sparse Coding (2018)(arXiv:1806.04374)

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Vincent Andrearczyk and Adrien Depeursinge, Rotational 3D Texture Classification Using Group Equivariant CNNs (2018), in: ArXiv

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Virginie Uhlmann, Zsuzsanna Püspöki, Adrien Depeursinge, Michael Unser, Daniel Sage and Julien Fageot, Steer'n'Detect: Fast 2D Template Detection with Accurate Orientation Estimation (2022), in: Bioinformatics, 38:11(3146–3148)

[]: IF 2019 = 5.61
[]: Demo page: http://bigwww.epfl.ch/algorithms/steer_n_detect/
[]: Source code: https://github.com/Biomedical-Imaging-Group/Steer-n-Detect
[]: Zenodo: https://zenodo.org/records/10078907

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Adrien Depeursinge, Tunde Szilágyi, Yan Liu, Kazmer Kovacs, Reena Thomas, Kristen Yeom, Nancy Fischbein, Daniel L. Rubin, Michael Iv and Olivier Gevaert, Locoregional radiogenomic models to capture gene expression heterogeneity in glioblastoma (2018), in: biorXiv

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Pierre Fontaine, Vincent Andrearczyk, Valentin Oreiller, Daniel Abler, Joel Castelli, Oscar Acosta, R. De Crevoisier, Martin Vallières, Mario Jreige, John O. Prior and Adrien Depeursinge, Cleaning Radiotherapy Contours for Radiomics Studies, is it Worth it? A Head and Neck Cancer Study (2022), in: Clinical and Translational Radiation Oncology, 33(153-158)

[]: IF 2021 = 4.739

Anaïs Badoual, Michael Unser and Adrien Depeursinge, Texture-Driven Parametric Snakes for Semi-Automatic Image Segmentation (2019), in: Computer Vision and Image Understanding, 188(102793)

[]: IF 2018 = 2.645
[]: Icy plugin and source code: https://bigwww.epfl.ch/demo/texture-snake/

Daphné Faist, Mario Jreige, Valentin Oreiller, Marie Nicod-Lalonde, Niklaus Schaefer, Adrien Depeursinge and John O. Prior, Reproducibility of lung cancer radiomics features extracted from data-driven respiratory gating and free-breathing flow imaging in [18F]-FDG PET/CT (2022), in: European Journal of Hybrid Imaging, 6:1(33)

[]: IF 2022: 1.7

Joel Castelli, Adrien Depeursinge, Anne Devillers, B. Campillo-Gimenez, Yashin Dicente Cid, John O. Prior, Enrique Chajon, Franck Jegoux, C. Sire, Oscar Acosta, X. Sun, B. De Bari, J. Bourhis and R. De Crevoisier, PET-based predictive survival model after radiotherapy for head and neck cancer (2019), in: European Journal of Nuclear Medicine and Molecular Imaging, 46:3(638-649)

[]: IF 2016 = 7.277

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Daniel Abler, Roger Schaer, Valentin Oreiller, Himanshu Verma, Julien Reichenbach, Orfeas Aidonopoulos, Florian Evéquoz, Mario Jreige, John O. Prior and Adrien Depeursinge, QuantImage v2: A Comprehensive and Integrated Physician-Centered Cloud Platform for Radiomics and Machine Learning Research (2023), in: European Radiology Experimental, 7:16

[]: IF 2022: 3.75

Roberto Gatta, Adrien Depeursinge, Osman Ratib, Olivier Michielin and Antoine Leimgruber, Integrating radiomics into holomics for personalised oncology: from algorithms to bedside (2020), in: European Radiology Experimental, 4(11)

Julien Fageot, Virginie Uhlmann, Zsuzsanna Püspöki, Benjamin Beck, Michael Unser and Adrien Depeursinge, Principled Design and Implementation of Steerable Detectors (2021), in: IEEE Transactions on Image Processing, 30(4465-4478)

[]: IF 2020 = 9.34
[]: Demo page: http://bigwww.epfl.ch/algorithms/steer_n_detect/
[]: Source code: https://github.com/Biomedical-Imaging-Group/Steer-n-Detect

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Oscar Jimenez del Toro, Christoph Aberle, Michael Bach, Roger Schaer, Markus Obmann, Kyriakos Flouris, Ender Konukoglu, Bram Stieltjes, Henning Müller and Adrien Depeursinge, The discriminative power and stability of radiomics features with CT variations: Task-based analysis in an anthropomorphic 3D-printed CT phantom (2021), in: Investigative Radiology, 56:12(820-825)

[]: IF 2020 = 5.156

Gwenaelle Creff, Anne Devillers, Adrien Depeursinge, Xavier Palard-Novello, Oscar Acosta, Franck Jegoux and Joel Castelli, Evaluation of the Prognostic Value of FDG PET/CT Parameters for Patients with Surgically Treated Head and Neck Cancer: A Systematic Review (2020), in: JAMA Otolaryngology - Head and Neck Surgery, 146:5(471-479)

[]: IF 2019 = 3.295

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Vincent Andrearczyk, Adrien Depeursinge and Henning Müller, Neural Network Training for Cross-Protocol Radiomic Feature Standardization in Computed Tomography (2019), in: Journal of Medical Imaging, 6:3(024008)

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Vincent Andrearczyk, Valentin Oreiller, Sarah Boughdad, Catherine Cheze-Le-Rest, Olena Tankyevych, Hesham Elhalawani, Mario Jreige, John O. Prior, Martin Vallières, Dimitris Visvikis, Mathieu Hatt and Adrien Depeursinge, Automatic Head and Neck Tumor Segmentation and Outcome Prediction Relying on FDG-PET/CT Images: Findings from the Second Edition of the HECKTOR Challenge (2023), in: Medical Image Analysis, 90:1(102972)

[]: IF 2022: 10.9

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Valentin Oreiller, Vincent Andrearczyk, Mario Jreige, Sarah Boughdad, Hesham Elhalawani, Joel Castelli, Martin Vallières, Simeng Zhu, Juanying Xie, Ying Peng, Andrei Iantsen, Mathieu Hatt, Yading Yuan, Jun Ma, Xiaoping Yang, Chinmay Rao, Suraj Pai, Kanchan Ghimire, Xue Feng, Mohamed A. Naser, Clifton D. Fuller, Fereshteh Yousefirizi, Arman Rahmim, Huai Chen, Lisheng Wang, John O. Prior and Adrien Depeursinge, Head and Neck Tumor Segmentation in PET/CT: The HECKTOR Challenge (2022), in: Medical Image Analysis, 77(102336)

[]: IF 2020 = 8.545

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Vincent Andrearczyk, Julien Fageot, Valentin Oreiller, Xavier Montet and Adrien Depeursinge, Local Rotation Invariance in 3D CNNs (2020), in: Medical Image Analysis, 65(101756)

[]: IF 2018 = 8.79

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Ranveer Joyseeree, Sebastian Otalora, Henning Müller and Adrien Depeursinge, Fusing Learned Representations from Riesz and Deep CNNs for Lung Tissue Classification (2019), in: Medical Image Analysis, 56(172-183)

[]: IF 2017 = 5.356

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Sacha Bors, Daniel Abler, Matthieu Dietz, Vincent Andrearczyk, Julien Fageot, Marie Nicod-Lalonde, Niklaus Schaefer, Robert DeKemp, Christel H. Kamani, John O. Prior and Adrien Depeursinge, Comparing various AI approaches to traditional quantitative assessment of the myocardial perfusion in [82Rb] PET for MACE prediction (2024), in: Nature Scientific Reports, 14:9644

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Pierre Fontaine, Oscar Acosta, Joel Castelli, R. De Crevoisier, Henning Müller and Adrien Depeursinge, The Importance of Feature Aggregation in Radiomics: A Head and Neck Cancer Study (2020), in: Nature Scientific Reports, 10:19679

[]: IF 2019 = 3.998

Dmitry Chezerov, Dmitry Goldgof, Lawrence Hall, Robert Gillies, Matther Schabath, Henning Müller and Adrien Depeursinge, Revealing Tumor Habitats from Texture Heterogeneity Analysis for Classification of Lung Cancer Malignancy and Aggressiveness (2019), in: Nature Scientific Reports, 9:1(4500)

[]: IF 2016 = 4.259

Mara Graziani, Thomas Lompech, Henning Müller, Adrien Depeursinge and Vincent Andrearczyk, On the Scale Invariance in State of the Art CNNs Trained on ImageNet (2021), in: Special Issue "Interpretable and Annotation-Efficient Learning for Medical Image Computing" in Machine Learning and Knowledge Extraction:3(374–391)

Himanshu Verma, Jakub Mlynar, Roger Schaer, Julien Reichenbach, Mario Jreige, John O. Prior, Florian Evéquoz and Adrien Depeursinge, Rethinking the Role of AI with Physicians in Oncology: Revealing Perspectives from Clinical and Research Workflows, in: ACM CHI 2023, 2023

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Daniel Abler, Vincent Andrearczyk, Valentin Oreiller, Javier Barranco Garcia, Diem Vuong, Stephanie Tanadini-Lang, Matthias Guckenberger, Mauricio Reyes and Adrien Depeursinge, Comparison of MR preprocessing strategies and sequences for radiomics-based MGMT prediction, in: Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries (MICCAI/BrainLes 2021), Cham, pages 367–380, Springer International Publishing, 2022

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Vincent Andrearczyk, Valentin Oreiller, Mario Jreige, Hesham Elhalawani, Sarah Boughdad, Catherine Cheze-Le-Rest, John O. Prior, Mathieu Hatt and Adrien Depeursinge, HEad and neCK TumOR segmentation and outcome prediction: The HECKTOR challenge, in: European Society of Radiology, 2022

Valentin Oreiller, Julien Fageot, Vincent Andrearczyk, John O. Prior and Adrien Depeursinge, Multi-Organ Nucleus Segmentation Using a Locally Rotation Invariant Bispectral U-Net, in: Medical Imaging with Deep Learning, 2022

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Vincent Andrearczyk, Valentin Oreiller, Sarah Boughdad, Catherine Cheze-Le-Rest, Hesham Elhalawani, Mario Jreige, John O. Prior, Martin Vallières, Dimitris Visvikis, Mathieu Hatt and Adrien Depeursinge, Overview of the HECKTOR Challenge at MICCAI 2021: Automatic Head and Neck Tumor Segmentation and Outcome Prediction in PET/CT Images, in: Head and Neck Tumor Segmentation and Outcome Prediction, pages 1-37, 2022

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Roger Schaer, Valentin Oreiller, Daniel Abler, Himanshu Verma, Julien Reichenbach, Florian Evéquoz, Mario Jreige, John O. Prior and Adrien Depeursinge, QuantImage v2: A Clinician-in-the-loop Cloud Platform for Radiomics Research, in: European Society of Radiology, 2022

Vincent Andrearczyk, Valentin Oreiller, Mario Jreige, Joel Castelli, John O. Prior and Adrien Depeursinge, Segmentation and Classification of Head and Neck Nodal Metastases and Primary Tumors in PET/CT, in: 44th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC), pages 4731-4735, 2022

Philip Whybra, Roger Schaer, Adrien Depeursinge, Vincent Andrearczyk, Henning Müller, Martin Vallières and Alex Zwanenburg, The Image Biomarker Standardisation Initiative (IBSI) On Reproducible Convolutional Radiomics, in: European Society of Radiology, 2022

Pierre Fontaine, Vincent Andrearczyk, Valentin Oreiller, Joel Castelli, Mario Jreige, John O. Prior and Adrien Depeursinge, Fully Automatic Head and Neck Cancer Prognosis Prediction in PET/CT, in: Multimodal Learning for Clinical Decision Support, pages 59-68, Springer LNCS, 2021

Vincent Andrearczyk, Pierre Fontaine, Valentin Oreiller, Joel Castelli, Mario Jreige, John O. Prior and Adrien Depeursinge, Multi-Task Deep Segmentation and Radiomics for Automatic Prognosis in Head and Neck Cancer, in: 4th Workshop on PRedictive Intelligence in MEdicine, pages 147-156, Springer LNCS, 2021

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Roger Schaer, Valentin Oreiller, Orfeas Aidonopoulos, John O. Prior and Adrien Depeursinge, QuantImage v2: an Open-Source and Web-Based Integrated Platform for Clinical Radiomics Research, in: Joint scientific session SSRMP/SGR-SSR, 2021

Oscar Jimenez del Toro, Christoph Aberle, Michael Bach, Roger Schaer, Markus Obmann, Kyriakos Flouris, Ender Konukoglu, Bram Stieltjes, Adrien Depeursinge and Henning Müller, Revealing most suitable CT radiomics features for retrospective studies with heterogeneous datasets, in: European Congress of Radiology (ECR) 2021, ONLINE edition, 2021

Vincent Andrearczyk, Valentin Oreiller, Martin Vallières, Joel Castelli, Hesham Elhalawani, Mario Jreige, Sarah Boughdad, John O. Prior and Adrien Depeursinge, Automatic Segmentation of Head and Neck Tumors and Nodal Metastases in PET-CT scans, in: Medical Imaging with Deep Learning, Montréal, Canada, 2020

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Vincent Andrearczyk, Mara Graziani, Henning Müller and Adrien Depeursinge, Consistency of Scale Covariance in Internal Representations of CNNs, in: Irish Machine Vision and Image Processing Conference, 2020

Mara Graziani, Thomas Lompech, Henning Müller, Adrien Depeursinge and Vincent Andrearczyk, Interpretable CNN Pruning for Preserving Scale-Covariant Features in Medical Imaging, in: Workshop on Interpretability of Machine Intelligence in Medical Image Computing at MICCAI 2020, 2020

Vincent Andrearczyk, Valentin Oreiller and Adrien Depeursinge, Oropharynx Detection in PET-CT for Tumor Segmentation, in: Irish Machine Vision and Image Processing Conference, 2020, 2020

Guillaume Vanoost, Yashin Dicente Cid, Daniel L. Rubin and Adrien Depeursinge, A lung graph model for the classification of interstitial lung disease on CT images, in: SPIE Medical Imaging 2019: Computer-Aided Diagnosis, International Society for Optics and Photonics, pages 869-876, SPIE, 2019

Vincent Andrearczyk, Julien Fageot, Valentin Oreiller, Xavier Montet and Adrien Depeursinge, Exploring local rotation invariance in 3D CNNs with steerable filters, in: Medical Imaging with Deep Learning, pages 15-26, Proceedings of Machine Learning Research, 2019

[]: Won the overall best paper award of MIDL 2019 !

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Vincent Andrearczyk, Adrien Depeursinge and Henning Müller, Learning Cross-Protocol Radiomics and Deep Feature Standardization from CT Images of Texture Phantoms, in: SPIE Medical Imaging 2019, International Society for Optics and Photonics, pages 109-116, SPIE, 2019

Julien Fageot, Virginie Uhlmann, Adrien Depeursinge, Zsuzsanna Püspöki, Daniel Sage and Michael Unser, Radial B-Splines for Optimal Detection in Images, in: ISBI Special Session on Spline Models in Biomedical Imaging, 2019

Vincent Andrearczyk, Valentin Oreiller, Julien Fageot, Xavier Montet and Adrien Depeursinge, Solid Spherical Energy (SSE) CNNs for Efficient 3D Medical Image Analysis, in: Irish Machine Vision and Image Processing Conference, pages 37-44, 2019

Adrien Depeursinge, Julien Fageot, Vincent Andrearczyk, John-Paul Ward and Michael Unser, Rotation Invariance and Directional Sensitivity: Spherical Harmonics versus Radiomics Features, in: Machine Learning in Medical Imaging (MLMI), pages 107--115, Springer International Publishing, 2018

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Vincent Andrearczyk, Valentin Oreiller, Mario Jreige, Martin Vallières, Hesham Elhalawani, Sarah Boughdad, John O. Prior and Adrien Depeursinge, Overview of the HECKTOR Challenge at MICCAI 2020: Automatic Head and Neck Tumor Segmentation in PET/CT, pages 1-21, 2021

Valentin Oreiller, Vincent Andrearczyk, Julien Fageot, John O. Prior and Adrien Depeursinge, 3D Solid Spherical Bispectrum CNNs for Biomedical Texture Analysis, 2020

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Adrien Depeursinge, Vincent Andrearczyk, Philip Whybra, Joost van Griethuysen, Henning Müller, Roger Schaer, Martin Vallières and Alex Zwanenburg, Standardised convolutional filtering for radiomics, 2020

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Head and Neck Tumor Segmentation and Outcome Prediction, Springer International Publishing, 2022

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