Publications

2021
Adrià Casamitjana, Matteo Mancini, and Juan Eugenio Iglesias. 2021. “Synth-by-reg (sbr): Contrastive learning for synthesis-based registration of paired images.” In International Workshop on Simulation and Synthesis in Medical Imaging, Pp. 44–54. Springer, Cham.
Malte Hoffmann, Benjamin Billot, Douglas N Greve, Juan Eugenio Iglesias, Bruce Fischl, and Adrian V Dalca. 2021. “SynthMorph: learning contrast-invariant registration without acquired images.” IEEE transactions on medical imaging, 41, 3, Pp. 543–558.
Andrew Hoopes, Juan Eugenio Iglesias, Bruce Fischl, Douglas Greve, and Adrian V Dalca. 2021. “TopoFit: Rapid Reconstruction of Topologically-Correct Cortical Surfaces.” In Medical Imaging with Deep Learning.
Lo{\"ıc Peter, Daniel C Alexander, Caroline Magnain, and Juan Eugenio Iglesias. 2021. “Uncertainty-Aware Annotation Protocol to Evaluate Deformable Registration Algorithms.” IEEE Transactions on Medical Imaging, 40, 8, Pp. 2053–2065.
2020
Henry FJ Tregidgo, Adrià Casamitjana, Caitlin S Latimer, Mitchell D Kilgore, Eleanor Robinson, Emily Blackburn, Koen Van Leemput, Bruce Fischl, Adrian V Dalca, and Christine L MacDonald. 2020. “3D Reconstruction and Segmentation of Dissection Photographs for MRI-Free Neuropathology.” International Conference on Medical Image Computing and Computer-Assisted Intervention. Springer, Cham.
Loic Peter, Marcel Tella-Amo, Dzhoshkun Ismail Shakir, Jan Deprest, Sebastien Ourselin, Juan Eugenio Iglesias, and Tom Vercauteren. 2020. “Active Annotation of Informative Overlapping Frames in Video Mosaicking Applications.” arXiv preprint arXiv:2012.15343.
Evan M Yu, Juan Eugenio Iglesias, Adrian V Dalca, and Mert R Sabuncu. 2020. “An Auto-Encoder Strategy for Adaptive Image Segmentation.” arXiv preprint arXiv:2004.13903.
Yu M Evan, Juan Eugenio Iglesias, Adrian V Dalca, and Mert R Sabuncu. 2020. “An Auto-Encoder Strategy for Adaptive Image Segmentation.” Medical Imaging with Deep Learning.
Martina Bocchetta, Juan Eugenio Iglesias, Viorica Chelban, Edwin Jabbari, Ruth Lamb, Lucy L Russell, Caroline V Greaves, Mollie Neason, David M Cash, and David L Thomas. 2020. “Automated brainstem segmentation detects differential involvement in atypical parkinsonian syndromes.” Journal of movement disorders, 13, 1, Pp. 39.
Benjamin Billot, Martina Bocchetta, Emily Todd, Adrian V Dalca, Jonathan D Rohrer, and Juan Eugenio Iglesias. 2020. “Automated segmentation of the hypothalamus and associated subunits in brain MRI.” NeuroImage, 223, Pp. 117287.
Iman Aganj, Aina Frau-Pascual, Juan E Iglesias, Anastasia Yendiki, Jean C Augustinack, David H Salat, and Bruce Fischl. 2020. “Compensatory Brain Connection Discovery in Alzheimer's Disease.” 2020 IEEE 17th International Symposium on Biomedical Imaging (ISBI). IEEE.
Yunguan Fu, Nina Montaña Brown, Shaheer U Saeed, Adrià Casamitjana, Zachary Baum, Rémi Delaunay, Qianye Yang, Alexander Grimwood, Zhe Min, and Stefano B Blumberg. 2020. “DeepReg: a deep learning toolkit for medical image registration.” arXiv preprint arXiv:2011.02580.
Lilla Zöllei, Juan Eugenio Iglesias, Yangming Ou, Ellen P Grant, and Bruce Fischl. 2020. “Infant FreeSurfer: An automated segmentation and surface extraction pipeline for T1-weighted neuroimaging data of infants 0-2 years.” Neuroimage, Pp. 116946.
Nalini M Singh, Juan Eugenio Iglesias, Elfar Adalsteinsson, Adrian V Dalca, and Polina Golland. 2020. “Joint Frequency-and Image-Space Learning for Fourier Imaging.” arXiv preprint arXiv:2007.01441.
Juan Eugenio Iglesias, Benjamin Billot, Yael Balbastre, Azadeh Tabari, John Conklin, Daniel C Alexander, Polina Golland, Brian L Edlow, and Bruce Fischl. 2020. “Joint super-resolution and synthesis of 1 mm isotropic MP-RAGE volumes from clinical MRI exams with scans of different orientation, resolution and contrast.” arXiv preprint arXiv:2012.13340.
Malte Hoffmann, Benjamin Billot, Juan Eugenio Iglesias, Bruce Fischl, and Adrian V Dalca. 2020. “Learning Multi-Modal Image Registration without Real Data.” arXiv preprint arXiv:2004.10282.
Benjamin Billot, Douglas Greve, Koen Van Leemput, Bruce Fischl, Juan Eugenio Iglesias, and Adrian V Dalca. 2020. “A Learning Strategy for Contrast-agnostic MRI Segmentation.” arXiv preprint arXiv:2003.01995.
Matteo Mancini, Adrià Casamitjana, Loic Peter, Eleanor Robinson, Shauna Crampsie, David L Thomas, Janice L Holton, Zane Jaunmuktane, and Juan Eugenio Iglesias. 2020. “A multimodal computational pipeline for 3D histology of the human brain.” bioRxiv.
Mancini Matteo, Casamitjana Adrià, Peter Loic, Eleanor Robinson, Crampsie Shauna, David L Thomas, Janice L Holton, Jaunmuktane Zane, and Juan Eugenio Iglesias. 2020. “A multimodal computational pipeline for 3D histology of the human brain.” Scientific Reports (Nature Publisher Group), 10, 1.
Benjamin Billot, Eleanor D Robinson, Adrian V Dalca, and Juan Eugenio Iglesias. 2020. “Partial Volume Segmentation of Brain MRI Scans of any Resolution and Contrast.” arXiv preprint arXiv:2004.10221.

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