Robust Non-negative Tensor Factorization, Diffeomorphic Motion Correction, and Functional Statistics to Understand Fixation in Fluorescence Microscopy. - Neel Dey; Jeffrey Messinger; R. Theodore Smith; Christine A. Curcio; Guido Gerig (MICCAI (1), 2019)

Multi-modal image fusion for multispectral super-resolution in microscopy. - Neel Dey; Shijie Li; Katharina Bermond; Rainer Heintzmann; Christine A. Curcio; Thomas Ach; Guido Gerig (Image Processing, 2019)

Tensor decomposition of hyperspectral images to study autofluorescence in age-related macular degeneration. - Neel Dey; Sungmin Hong; Thomas Ach; Yiannis Koutalos; Christine A. Curcio; R. Theodore Smith; Guido Gerig (Medical Image Anal., 2019)

Self-supervised Denoising via Diffeomorphic Template Estimation: Application to Optical Coherence Tomography. - Guillaume Gisbert; Neel Dey; Hiroshi Ishikawa 005; Joel S. Schuman; James Fishbaugh; Guido Gerig (OMIA@MICCAI, 2020)

Generative Adversarial Registration for Improved Conditional Deformable Templates. - Neel Dey; Mengwei Ren; Adrian V. Dalca; Guido Gerig (ICCV, 2021)

Group Equivariant Generative Adversarial Networks. - Neel Dey; Antong Chen; Soheil Ghafurian (ICLR, 2021)

Equivariant Spherical Deconvolution: Learning Sparse Orientation Distribution Functions from Spherical Data. - Axel Elaldi; Neel Dey; Heejong Kim; Guido Gerig (IPMI, 2021)

Point-Supervised Segmentation Of Microscopy Images And Volumes Via Objectness Regularization. - Shijie Li; Neel Dey; Katharina Bermond; Leon von der Emde; Christine A. Curcio; Thomas Ach; Guido Gerig (ISBI, 2021)

Q-space Conditioned Translation Networks for Directional Synthesis of Diffusion Weighted Images from Multi-modal Structural MRI. - Mengwei Ren; Heejong Kim; Neel Dey; Guido Gerig (MICCAI (7), 2021)

Segmentation-Renormalized Deep Feature Modulation for Unpaired Image Harmonization. - Mengwei Ren; Neel Dey; James Fishbaugh; Guido Gerig (IEEE Trans. Medical Imaging, 2021)

ContraReg: Contrastive Learning of Multi-modality Unsupervised Deformable Image Registration. - Neel Dey; Jo Schlemper; Seyed Sadegh Mohseni Salehi; Bo Zhou 009; Guido Gerig; Michal Sofka (MICCAI (6), 2022)

Local Spatiotemporal Representation Learning for Longitudinally-consistent Neuroimage Analysis. - Mengwei Ren; Neel Dey; Martin Styner; Kelly N. Botteron; Guido Gerig (NeurIPS, 2022)

Dual-domain self-supervised learning for accelerated non-Cartesian MRI reconstruction. - Bo Zhou 009; Jo Schlemper; Neel Dey; Seyed Sadegh Mohseni Salehi; Kevin N. Sheth; Chi Liu 001; James S. Duncan; Michal Sofka (Medical Image Anal., 2022)

Learning Probabilistic Piecewise Rigid Atlases of Model Organisms via Generative Deep Networks. - Amin Nejatbakhsh; Neel Dey; Vivek Venkatachalam; Eviatar Yemini; Liam Paninski; Erdem Varol (IPMI, 2023)

Boundary-Weighted Logit Consistency Improves Calibration of Segmentation Networks. - Neerav Karani; Neel Dey; Polina Golland (MICCAI (3), 2023)

Feature Selection for Malapposition Detection in Intravascular Ultrasound - A Comparative Study. - Satyananda Kashyap; Neerav Karani; Alexander Shang; Niharika Shimona D'Souza; Neel Dey; Lay Jain; Ray Wang; Hatice Akakin; Qian Li; Wenguang Li; Corydon Carlson; Polina Golland; et al. (AMAI@MICCAI, 2023)

E(3) x SO(3)-Equivariant Networks for Spherical Deconvolution in Diffusion MRI. - Axel Elaldi; Guido Gerig; Neel Dey (MIDL, 2023)

Data Consistent Deep Rigid MRI Motion Correction. - Nalini M. Singh; Neel Dey; Malte Hoffmann; Bruce Fischl; Elfar Adalsteinsson; Robert Frost; Adrian V. Dalca; Polina Golland (MIDL, 2023)

DSFormer: A Dual-domain Self-supervised Transformer for Accelerated Multi-contrast MRI Reconstruction. - Bo Zhou 009; Neel Dey; Jo Schlemper; Seyed Sadegh Mohseni Salehi; Chi Liu 001; James S. Duncan; Michal Sofka (WACV, 2023)

E(3) × SO(3)-Equivariant Networks for Spherical Deconvolution in Diffusion MRI. - Axel Elaldi; Guido Gerig; Neel Dey (CoRR, 2023)

Consistency Regularization Improves Placenta Segmentation in Fetal EPI MRI Time Series. - Yingcheng Liu; Neerav Karani; Neel Dey; S. Mazdak Abulnaga; Junshen Xu; Patricia Ellen Grant; Esra Abaci Turk; Polina Golland (CoRR, 2023)

Dynamic Neural Fields for Learning Atlases of 4D Fetal MRI Time-series. - Zeen Chi; Zhongxiao Cong; Clinton J. Wang; Yingcheng Liu; Esra Abaci Turk; Patricia Ellen Grant; S. Mazdak Abulnaga; Polina Golland; Neel Dey (CoRR, 2023)

Shape-aware Segmentation of the Placenta in BOLD Fetal MRI Time Series. - S. Mazdak Abulnaga; Neel Dey; Sean I. Young; Eileen Pan; Katherine I. Hobgood; Clinton J. Wang; Patricia Ellen Grant; Esra Abaci Turk; Polina Golland (CoRR, 2023)

SE(3)-Equivariant and Noise-Invariant 3D Motion Tracking in Medical Images. - Benjamin Billot; Daniel Moyer; Neel Dey; Malte Hoffmann; Esra Abaci Turk; Borjan A. Gagoski; Patricia Ellen Grant; Polina Golland (CoRR, 2023)

Intraoperative 2D/3D Image Registration via Differentiable X-Ray Rendering. - Vivek Gopalakrishnan; Neel Dey; Polina Golland (CVPR, 2024)

Network conditioning for synergistic learning on partial annotations. - Benjamin Billot; Neel Dey; Esra Abaci Turk; Ellen Grant; Polina Golland (MIDL, 2024)

Geo-UNet: A Geometrically Constrained Neural Framework for Clinical-Grade Lumen Segmentation in Intravascular Ultrasound. - Yiming Chen; Niharika Shimona D'Souza; Akshith Mandepally; Patrick Henninger; Satyananda Kashyap; Neerav Karani; Neel Dey; Marcos Zachary; Raed Rizq; Paul Chouinard; Polina Golland; Tanveer F. Syeda-Mahmood (MLMI@MICCAI (1), 2024)

Equivariant spatio-hemispherical networks for diffusion MRI deconvolution. - Axel Elaldi; Guido Gerig; Neel Dey (NeurIPS, 2024)

AnyStar: Domain randomized universal star-convex 3D instance segmentation. - Neel Dey; S. Mazdak Abulnaga; Benjamin Billot; Esra Abaci Turk; Patricia Ellen Grant; Adrian V. Dalca; Polina Golland (WACV, 2024)

Differentiable Voxel-based X-ray Rendering Improves Sparse-View 3D CBCT Reconstruction. - Mohammadhossein Momeni; Vivek Gopalakrishnan; Neel Dey; Polina Golland; Sarah F. Frisken (CoRR, 2024)

SE(3)-Equivariant and Noise-Invariant 3D Rigid Motion Tracking in Brain MRI. - Benjamin Billot; Neel Dey; Daniel Moyer; Malte Hoffmann; Esra Abaci Turk; Borjan A. Gagoski; Patricia Ellen Grant; Polina Golland (IEEE Trans. Medical Imaging, 2024)

MultiMorph: On-demand Atlas Construction. - S. Mazdak Abulnaga; Andrew Hoopes; Neel Dey; Malte Hoffmann; Bruce Fischl; John V. Guttag; Adrian V. Dalca (CVPR, 2025)

Learning General-purpose Biomedical Volume Representations using Randomized Synthesis. - Neel Dey; Benjamin Billot; Hallee E. Wong; Clinton J. Wang; Mengwei Ren; Ellen Grant; Adrian V. Dalca; Polina Golland (ICLR, 2025)

Synthesizing individualized aging brains in health and disease with generative models and parallel transport. - Jingru Fu; Yuqi Zheng; Neel Dey; Daniel Ferreira 003; Rodrigo Moreno (Medical Image Anal., 2025)

Rapid patient-specific neural networks for intraoperative X-ray to volume registration. - Vivek Gopalakrishnan; Neel Dey; David Dimitris Chlorogiannis; Andrew Abumoussa; Anna M. Larson; Darren Orbach; Sarah F. Frisken; Polina Golland (CoRR, 2025)

MultiMorph: On-demand Atlas Construction. - S. Mazdak Abulnaga; Andrew Hoopes; Neel Dey; Malte Hoffmann; Marianne Rakic; Bruce Fischl; John V. Guttag; Adrian V. Dalca (CoRR, 2025)

PolyPose: Localizing Deformable Anatomy in 3D from Sparse 2D X-ray Images using Polyrigid Transforms. - Vivek Gopalakrishnan; Neel Dey; Polina Golland (CoRR, 2025)