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Griffa A, Amico E, Liégeois R, Van De Ville D, Preti MG. Brain structure-function coupling provides signatures for task decoding and individual fingerprinting - NeuroImage, 250(2022): 118970, April 2022

La Rosa F, Beck ES, Maranzano J, Todea R-A, van Gelderen P, de Zwart JA, Luciano NJ, Duyn JH, Thiran JP, Granziera C, Reich DS, Sati P, Bach Cuadra M. Multiple sclerosis cortical lesion detection with deep learning at ultra‐high‐field MRI - NMR in Biomedicine, 2022: e4730, March 2022

Helmchen C, Koch PJ, Girard G, Brüggemann N, Machner B, Sprenger A. NPTX1‑related oculomotor apraxia: an intra‑hemispheric disconnection disorder - Journal of Neurology, : , March 2022

Canales-Rodríguez EJ, Pizzolato M, Yu T, Piredda GF, Hilbert T, Radua J, Kober T, Thiran JP. Revisiting the T 2 spectrum imaging inverse problem: Bayesian regularized non-negative least squares - NeuroImage, 244: 118582, September 2021

Van De Ville D, Farouj Y, Preti MG, Liégeois R, Amico E. When makes you unique: Temporality of the human brain fingerprint - Science Advances, 7(42): eabj0751, October 2021

Todea RA, Melie Garcia L, Barakovic M, Siebenborn N, Cagol A, Rahmanzadeh R, Galbusera R, Lu PJ, Weigel M, Ruberte E, Radue EW, Schaedelin S, Benkert P, Yaldizli O, Oechtering J, Sinnecker T, Müller S, Achtnichts L, Vehoff J, Disanto G, Findling O, Chan A, Salmen A, Pot C, Lalive P, Zecca C, Derfuss T, Remonda L, Wagner F, Vargas M, Du Pasquier R, Pravata E, Weber J, Gobbi C, Leppert D, Wuerfel J, Kober T, Marechal B, Corredor-Jerez R, Psychogios M, Lieb J, Kappos L, Bach Cuadra M, Kuhle J, Granziera C. Leman-PV as a clinical decision-support tool to assess MS activity: a multicentric longitudinal study at 1.5T and 3T MRI - ECTRIMS 2021 - Multiple Sclerosis Journal, 27(2_SUPPL): 499, October 2021

La Rosa F, Beck ES, Maranzano J, Thiran JP, Granziera C, Reich DS, Sati P, Bach Cuadra M. Automated detection of cortical lesions with single and multi-contrast 7T MRI - ECTRIMS 2021 - Multiple Sclerosis Journal, 27(2_SUPPL): 502, October 2021

La Rosa F, Lu PJ, Rahmanzadeh R, Cagol A, Barakovic M, Thiran JP, Granziera C, Bach Cuadra M. CLaiMS-Net: cortical lesions assessment in multiple sclerosis patients via a convolutional neural network and a single 3T MRI acquisition - ECTRIMS 2021 - Multiple Sclerosis Journal, 27(2_SUPPL): 500, October 2021

Müller J, Rahmanzadeh R, Tsagkas C, Barakovic M, Lu PJ, Yaldizli O, Weigel M, Beaumont J, La Rosa F, Bach Cuadra M, Kappos L, Kuhle J, Gambarota G, Granziera C. Cortical lesion detection using FLAWS in multiple sclerosis - ECTRIMS 2021 - Multiple Sclerosis Journal, 27(2_SUPPL): 465, October 2021

Rahmanzadeh R, Weigel M, Lu PJ, Melie-Garcia L, Nguyen TD, La Rosa F, Wang Y, Bach Cuadra M, Radue EW, Gaetano L, Magon S, Kappos L, Kuhle J, Granziera C. An assessment of intra-scanner reproducibility of myelin-sensitive MRI measures - ECTRIMS 2021 - Multiple Sclerosis Journal, 27(2_SUPPL): 430-431, October 2021

Bozorgtabar B, Vray G, Mahapatra D, Thiran JP. SOoD: Self-supervised Out-of-Distribution detection under domain shift for multi-class colorectal cancer tissue types - IEEE/CVF International Conference on Computer Vision (ICCV) Workshops, : 3324-3333, Virtual, October 2021

Kebiri H, Lajous H, Yasser Aleman-Gomez Y, Girard G, Canales Rodriguez E, Tourbier S, Pizzolato M, Ledoux JB, Fornari E, Jakab A, Bach Cuadra M. Quantitative evaluation of enhanced multi-plane clinical fetal diffusion MRI with a crossing-fiber phantom - 12th International Workshop, CDMRI 2021, 13006: 12-22, Strasbourg, France, October 2021

Anklin V, Pati P, Jaume G, Bozorgtabar B, Foncubierta-Rodriguez A, Thiran JP, Sibony M, Gabrani M, Goksel O. Learning whole-slide segmentation from inexact and incomplete labels using tissue graphs - Medical Image Computing and Computer Assisted Intervention – MICCAI 2021 24th International Conference, : , Strasbourg, France, October 2021

Rafael-Patino J, Girard G, Truffet R, Pizzolato M, Thiran JP, Caruyer E. The microstructural features of the diffusion-simulated connectivity (DiSCo) dataset - 12th International Workshop, CDMRI 2021, : , Strasbourg, France, September 2021

de Dumast P, Kebiri H, Atat C, Dunet V, Koob M, Bach Cuadra M. Segmentation of the cortical plate in fetal brain MRI with a topological loss - Uncertainty for Safe Utilization of Machine Learning in Medical Imaging, and Perinatal Imaging, Placental and Preterm Image Analysis. UNSURE 2021, PIPPI 2021, : , Strasbourg, France, October 2021

Di Noto T, Atat C, Gamito Teiga E, Hegi M, Hottinger A, Bach Cuadra M, Hagmann P, Richiardi J. Diagnostic surveillance of high-grade gliomas: towards automated change detection using radiology report classification - Applications of Machine Learning in Pharma and Healthcare Workshop, MICCAI, : , Strasbourg, France, September 2021

Rafael-Patino J, Girard G, Truffet R, Pizzolato M, Caruyer E, Thiran JP. The diffusion-simulated connectivity (DiSCo) dataset - Data in Brief, 38(2021): 107429, September 2021

Lajous H, Hilbert T, Roy CW, Tourbier S, de Dumast P, Alemán-Gómez Y, Yu T, Kebiri H, Ledoux JB, Hagmann P, Meuli R, Dunet V, Koob M, Stuber M, Kober T, Bach Cuadra M. Simulated Half-Fourier Acquisitions Single-shot Turbo spin Echo (HASTE) of the fetal brain: application to super-resolution reconstruction - Uncertainty for Safe Utilization of Machine Learning in Medical Imaging, and Perinatal Imaging, Placental and Preterm Image Analysis. UNSURE 2021, PIPPI 2021, 12959: 157-167, Strasbourg, France, September 2021

Niendorf T, Beenakker J, Langner S, Erb-Eigner K, Bach Cuadra M, Beller E, Millward JM, Niendorf TM, Stachs O. Ophthalmic magnetic resonance imaging: Where are we (heading to)? - Current Eye Research, 46(9): 1251-1270, September 2021

Schilling KG, Rheault F, Petit L, Hansen CB, Nath V, Yeh FC, Girard G, Barakovic M, Rafael-Patino J, Yu T, Fischi-Gomez E, Pizzolato M, Ocampo-Pineda M, Schiavi S, Canales-Rodríguez EJ, Daducci A, Granziera C, Innocenti G, Thiran JP, Mancini L, Wastling S, Cocozza S, Petracca M, Pontillo G, Mancini M, Vos SB, Vakharia VN, Duncan JS, Melero H, Manzanedo L, Sanz-Morales E, Peña-Melián A, Calamante F, Attyéw A, Cabeen RP, Korobova L, Toga AW, Vijayakumari AA, Parker D, Verma R, Radwan A, Sunaert S, Emsell L, De Luca A, Leemans A, Bajada CJ, Haroon H, Azadbakht H, Chamberland M, Genc S, Tax CMW, Yeh PH, Srikanchana R, Mcknight CD, Yang JYM, Chen J, Kelly CE, Yeh CH, Cochereau J, Maller JJ, Welton T, Almairac F, Seunarine KK, Clark CA, Zhang F, Makris N, Golby A, Rathi Y, O’Donnell LJ, Xia Y, Aydogan DB, Shi Y, Guerreiro Fernandes F, Raemaekers M, Warrington S, Michielse S, Ramírez-Manzanares A, Concha L, Aranda R, Rivera Meraz M, Lerma-Usabiaga G, Roitman L, Fekonja LS, Calarco N, Joseph M, Nakua H, Voineskos AN, Karan P, Grenier G, Haitz Legarreta JH, Adluru N, Nair VA, Prabhakaran V, Alexander AL, Kamagata K, Saito Y, Uchida W, Andica C, Abe M, Bayrak RG, Wheeler-Kingshott CAM, D’Angelo E, Palesi F, Savini G, Rolandi N, Guevara P, Houenou J, López-López N, Mangin JF, Poupon C, Román C, Vázquez A, Maffei C, Arantes M, Andrade JP, Silva SM, Calhoun VD, Caverzasi E, Sac S. Tractography dissection variability: What happens when 42 groups dissect 14 white matter bundles on the same dataset? - NeuroImage, 243(2021): 118502, August 2021

Koch PJ, Park CH, Gabriel Girard G, Beanato E, Egger P, Evangelista GG, Lee J, Wessel MJ, Morishita T, Koch G, Thiran JP, Guggisberg AG, Rosso C, Kim YH, Hummel FC. The structural connectome and motor recovery after stroke: predicting natural recovery - Brain, 144(7): 2107-2119, August 2021

Khawam M, de Dumast P, Deman P, Kebiri H, Yu T, Tourbier S, Lajous H, Hagmann P, Maeder P, Thiran JP, Meuli R, Dunet V, Bach Cuadra M, Koob M. Fetal brain biometric measurements on 3D super-resolution reconstructed T2-weighted MRI: an intra- and inter-observer agreement study - Frontiers in Pediatrics, 9(639746): 651, August 2021

Strijbis VIJ, de Bloeme CM, Jansen RW, Kebiri H, Nguyen H-G, de Jong JC, Moll AC, Bach Cuadra M, de Graaf P, Steenwijk MD. Multi-view convolutional neural networks for automated ocular structure and tumor segmentation in retinoblastoma - Scientific Reports, 11: 14590, July 2021

Klauser P, Cropley VL, Baumann PS, Lv J, Steullet P, Dwir D, Alemán-Gómez Y, Bach Cuadra M, Cuenod M, Do KQ, Conus P, Pantelis C, Fornito A, Van Rheenen TE, Zalesky A. White matter alterations between brain network hubs underlie processing speed impairment in patients with schizophrenia - Schizophrenia Bulletin, 2(1): , July 2021

Payette K, de Dumast P, Kebiri H, Ivan Ezhov I, Paetzold JC, Shit S, Iqbal A, Khan R, Kottke R, Grehten P, Ji H, Lanczi L, Nagy M, Beresova M, Nguyen TD, Natalucci G, Karayannis T, Menze B, Bach Cuadra M, Jakab A. An automatic multi-tissue human fetal brain segmentation benchmark using the Fetal Tissue Annotation Dataset - Nature Scientific Data, 8(1): 167, July 2021

Lu P-J, Barakovic M, Weigel M, Rahmanzadeh R, Galbusera R, Schiavi S, Daducci A, La Rosa M, Bach Cuadra M, Sandkühler R, Kuhle J, Kappos L, Cattin P and Granziera C. GAMER-MRI in multiple sclerosis identifies the diffusion-based microstructural measures that are most sensitive to focal damage: A deep-learning-based analysis and clinico-biological validation - Frontiers in Neuroscience, 15: 647535, April 2021

Siffredi V, Preti MG, Obertino S, Leventer RJ, Wood AG, McIlroy A, Anderson V, Spencer-Smith MM, Van De Ville D. Revisiting brain rewiring and plasticity in children born without corpus callosum - Developmental Science, 24(6): e13126, June 2021

Rey G, Bolton TAW, Julian Gaviria J, Piguet C, Preti MG, Favre S, Aubry J-M, Van De Ville D, Vuilleumier P. Dynamics of amygdala connectivity in bipolar disorders: a longitudinal study across mood states - Neuropsychopharmacology, O: 1-9, June 2021

Bommarito G, Tarun A, Farouj Y, Preti MG, Petracca M, Droby A, El Mendili MM, Inglese M, Van De Ville D. Altered anterior default mode network dynamics in progressive multiple sclerosis - Multiple Sclerosis Journal, 1: 11, June 2021

Maggi P, Kuhle J, Schädelin S, van der Meer F, Weigel M, Galbusera R, Mathias A, Lu P-L, Rahmanzadeh R, Benkert P, La Rosa F, Bach Cuadra M, Sati P, Théaudin M, Pot C, van Pesch V, Leppert D, Stadelmann C, Kappos L, Du Pasquier R, Reich DS, Absinta M, Granziera C. Chronic white matter inflammation and serum neurofilament levels in Multiple Sclerosis - Neurology, 97(6): e543-e553, June 2021

Caminiti R, Girard G, Battaglia-Mayer A, Borra E, Schito A, Innocenti GM, Luppino G. The complex hodological architecture of the macaque dorsal intraparietal areas as emerging from neural tracers and DW-MRI tractography - eNeuro, 8(4): , May 2021

La Rosa F, Barquero G, Al-Louzi O, Maréchal Mortamet BM, Kober T, Thiran JP, Sati P, Reich DS, Maggi P, Absinta M, Bach Cuadra, Granziera C. Automated assessment of paramagnetic rim lesions in multiple sclerosis patients with 3T and 7T MP2RAGE - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Sainz Martinez C, Lemay M, Bach Cuadra M, Jorge J. BigBrain-MR: a computational phantom for ultra-high-resolution MR methods development - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Lajous H, Hilbert T, Roy CW, Tourbier S, de Dumast P, Alemán-Gómez Y, Yu T, Hagmann P, Koob M, Dunet V, Kober T, Stuber M, Bach Cuadra M. A magnetic resonance imaging simulation framework of the developing fetal brain - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Rahmanzadeh R, Lu PJ, Barakovic M, Weigel M, Gaetano L, Galbusera R, Nguyen TD, La Rosa F, Reich DS, Sati P, Wang Y, Bach Cuadra M, Radue EW, Kuhle J, Kappos L, Magon S, Granziera C. Quantitative myelin-sensitive MRIs exhibit differential sensitivity to multiple sclerosis pathology in distinct brain lesions and regions - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Wynen M, La Rosa F, Sellimi A, Barquero G, Perrotta G, Lolli V, Van Pesch V, Granziera C, Kober T, Sati P, Macq B, Reich DS, Absinta M, Bach Cuadra M, Maggi P. Longitudinal automated assessment of paramagnetic rim lesions in multiple sclerosis using RimNet - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Di Noto T, Marie G, Tourbier S, Alemán-Gómez y, Saliou G, Bach Cuadra M, Hagmann P, Richiardi J. Improving automated aneurysm detection on multi-site MRA data: lessons learnt from a public machine learning challenge - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Villarreal Haro JL, Girard G, Thiran JP, Ramírez-Manzanares A. Estimation of individual brain signature and node-wise sensibility by a community-based DW-MRI connectome analysis - ISMRM & SMRT Annual Meeting, : , Online, May 2021

Girard G, Rafael-Patino J, Truffet R, Pizzolato M, Caruyer E, Thiran JP. A novel in silico phantom for microstructure, tractography and quantitative connectivity estimation - ISMRM & SMRT Annual Meeting, : , Online, May 2021

Maffei C, Girard G, Schilling KG, Baran Aydogan D, Adluru N, Zhylka A, Wu Y, Mancini M, Hamamci A, Sarica A, Karimi D, Yeh FC, Yildiz ME, Gholipour A, Quattrone A, Quattrone A, Yap PT, de Luca A, Pluim J, Lemans A, Prabhakaran V, Bendlin BB, Alexander AL, Landman BA, Canales-Rodríguez EJ, Barakovic M, Rafael-Patino J, Yu T, Rensonnet G, Schiavi S, Daducci A, Pizzolato M, Fischi-Gomez E, Thiran JP, Dai G, Grisot G, Puch S, Ramos M, Lazovski N, Rodrigues P, Prchkovska V, Jones R, Lehman J, Haber S, Yendiki A. New insights from the IronTract challenge: Simple post-processing enhances the accuracy of diffusion tractography - ISMRM & SMRT Annual Meeting, : , Online, May 2021

Lu PJ, Barakovic M, Weigel M, Rahmanzadeh R, Galbusera R, Schiavi S, Daducc A, La Rosa F, Bach Cuadra M, Sandkühler R, Kuhle J, Kappos L, Cattin P, Granziera C. Identification of diffusion-based micro-structural measures most sensitive to multiple sclerosis focal damage using GAMER-MRI - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Huelnhagen T, Al Louzi O, Fartaria MJ, Daboul L, Maggi P, Granziera C, Bach Cuadra M, Richiardi J, Reich DS, Kober T, Sati P O. Toward fully automated assessment of the central vein sign using deep learning - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Roy CW, Alamo L, Tenisch E, Heerfordt J, Prsa M, Bach Cuadra M, Piccini D, Yerly J, Stuber M. Motion compensated Free-Running 3D fetal magnetic resonance imaging: initial feasibility - Proceedings of the 29th ISMRM & SMRT Annual Meeting, : , Online, May 2021

Yu T, Canales-Rodríguez EJ, Pizzolato M, Piredda G, Hilbert T, Fischi-Gomez E, Weigel M, Barakovic M, Bach Cuadra M, Granziera C, Kober T, Thiran JP. Model-lnformed machine learning for multi-component T2 relaxometry - Medical image Analysis, 69(101940): , April 2021

Denoyelle Q, Pham TA, del Aguila Pla P, Sage D, Unser M. Optimal-transport-based metric for SMLM - IEEE International Symposium on Biomedical Imaging (ISBI'21), : 797-801, Nice, France, April 2021

Klug J, Leclerc G, Dirren E, Preti MG, Van De Ville D, Carrera E. Bayesian skip net: building on prior Information for the prediction and segmentation of stroke lesions - Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries, 12658: 168-180, March 2021

Klug J, Dirren E, Preti MG, Machi P, Kleinschmidt A, Vargas Gomez M, Van De Ville D, Carrera E. Integrating regional perfusion CT information improves prediction of infarction after stroke - Journal of Cerebral Blood Flow & Metabolism, 41(3): 502-510, March 2021

La Rosa F, Yu T, Barquero G, Thiran JP, Granziera C, Bach Cuadra M. MPRAGE to MP2RAGE UNI translation via generative adversarial network improves the automatic tissue and lesion segmentation in multiple sclerosis patients - Computers in Biology and Medicine, 132(104297): , March 2021

Rahmanzadeh Reza, Lu P-J, Barakovic M, Weigel M, Maggi P, Nguyen TD, Schiavi S, Daducci A, La Rosa F, Schaedelin S, Absinta M, Reich DS, Sati P, Wang Y, Bach Cuadra M, Radue E-W, Kuhle J, Kappos L, Granziera C. Myelin and axon pathology in multiple sclerosis assessed by myelin water and multi-shell diffusion imaging - Brain, 10: 1093, March 2021

Spahr A, Bozorgtabar B, Thiran JP. Self-taught semi-supervised anomaly detection on upper limb X-rays - 2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI), : , Nice, France, April 2021

Tomar D, Lortkipanidze M, Vray G, Bozorgtabar B, and Thiran JP. Self-attentive spatial adaptive normalization for cross-modality domain adaptation - IEEE Transactions on Medical Imaging, : , February 2021

Gauthier B, Brechet L, Lance F, Mange R, Herbelin B, Faivre N, Bolton TAW, Van De Ville D, Blanke O. First-person body view modulates the neural substrates of episodic memory and autonoetic consciousness: A functional connectivity study - NeuroImage, 223: , December 2020

Lu PJ, Yoo Y, Rahmanzadeh R, Galbusera R, Weigel M, Ceccaldi P, Nguyen TD, Spincemaille P, Wang Y, Daducci A, La Rosa F, Bach Cuadra M, Sandkühler R, Nael K, Doshi A, Fayad ZA, Kuhle J, Kappos L, Granziera C. GAMER MRI: Gated-attention mechanism ranking of multi-contrast MRI in brain pathology - NeuroImage Clinical, 29(102522): , December 2020

Bohra P, Campos J, Gupta H, Aziznejad S, Unser M. Learning activation functions in deep (spline) neural networks - IEEE Open Journal of Signal Processing, 1: 295 - 309, November 2020

Girard G, Caminiti R, Battaglia-Mayer A, St-Onge E, Ambrosen KS, Eskildsen SF, Krug K, Dyrby TB, Descoteaux M, Thiran JP, Innocenti GM. On the cortical connectivity in the macaque brain: A comparison of diffusion tractography and histological tracing data - NeuroImage, 221: 1, November 2020