42 citations · 171 across the 31 of their papers we have counts for
33 papers
Registration is a Representation Problem: Solving Whole-Body PET/CT Registration
Neel Dey, Adrian V. Dalca
Raw image intensities are a poor surrogate for similarity across images in correspondence problems. Further, while auxiliary segmentation labels can provide semantic identification…
FleXray: Universal Clinical X-ray Segmentation
Victor Ion Butoi, Vivek Gopalakrishnan, John V. Guttag +2
X-ray is medicine's most widely used imaging modality, yet remains among its least quantitative. Unlike volumetric modalities like CT or MRI, X-ray collapses 3D anatomy into a 2D p…
Why Invariance is Not Enough for Biomedical Domain Generalization and How to Fix It
Sebo Diaz, Polina Golland, Elfar Adalsteinsson +1
We present MaskGen, a theoretically grounded and deliberately simple approach for domain generalization in 3D biomedical image segmentation. Modern segmentation models degrade shar…
Robust Fetal Pose Estimation across Gestational Ages via Cross-Population Augmentation
Sebastian Diaz, Benjamin Billot, Neel Dey +5
Fetal motion is a critical indicator of neurological development and intrauterine health, yet its quantification remains challenging, particularly at earlier gestational ages (GA).…
PolyPose: Deformable 2D/3D Registration via Polyrigid Transformations
Vivek Gopalakrishnan, Neel Dey, Polina Golland
Determining the 3D pose of a patient from a limited set of 2D X-ray images is a critical task in interventional settings. While preoperative volumetric imaging (e.g., CT and MRI) p…
MultiMorph: On-demand Atlas Construction
S. Mazdak Abulnaga, Andrew Hoopes, Neel Dey +5
We present MultiMorph, a fast and efficient method for constructing anatomical atlases on the fly. Atlases capture the canonical structure of a collection of images and are essenti…
Rapid patient-specific neural networks for intraoperative X-ray to volume registration
Vivek Gopalakrishnan, David-Dimitris Chlorogiannis, Andrew Abumoussa +6
Advanced navigation techniques in image-guided interventions and surgical robotics require the rapid and precise alignment of 3D preoperative volumes (e.g., CT, MRI) to 2D intraope…
Synthesizing Individualized Aging Brains in Health and Disease with Generative Models and Parallel Transport
Jingru Fu, Yuqi Zheng, Neel Dey +2
Simulating prospective magnetic resonance imaging (MRI) scans from a given individual brain image is challenging, as it requires accounting for canonical changes in aging and/or di…
Differentiable Voxel-based X-ray Rendering Improves Sparse-View 3D CBCT Reconstruction
Mohammadhossein Momeni, Vivek Gopalakrishnan, Neel Dey +2
We present DiffVox, a self-supervised framework for Cone-Beam Computed Tomography (CBCT) reconstruction by directly optimizing a voxelgrid representation using physics-based differ…
Equivariant spatio-hemispherical networks for diffusion MRI deconvolution
Axel Elaldi, Guido Gerig, Neel Dey
Each voxel in a diffusion MRI (dMRI) image contains a spherical signal corresponding to the direction and strength of water diffusion in the brain. This paper advances the analysis…
Learning General-Purpose Biomedical Volume Representations using Randomized Synthesis
Neel Dey, Benjamin Billot, Hallee E. Wong +5
Current volumetric biomedical foundation models struggle to generalize as public 3D datasets are small and do not cover the broad diversity of medical procedures, conditions, anato…
VoxelPrompt: A Vision Agent for End-to-End Medical Image Analysis
Andrew Hoopes, Neel Dey, Victor Ion Butoi +2
We present VoxelPrompt, an end-to-end image analysis agent that tackles free-form radiological tasks. Given any number of volumetric medical images and a natural language prompt, V…
Geo-UNet: A Geometrically Constrained Neural Framework for Clinical-Grade Lumen Segmentation in Intravascular Ultrasound
Yiming Chen, Niharika S. D'Souza, Akshith Mandepally +9
Precisely estimating lumen boundaries in intravascular ultrasound (IVUS) is needed for sizing interventional stents to treat deep vein thrombosis (DVT). Unfortunately, current segm…
Shape-aware Segmentation of the Placenta in BOLD Fetal MRI Time Series
S. Mazdak Abulnaga, Neel Dey, Sean I. Young +6
Blood oxygen level dependent (BOLD) MRI time series with maternal hyperoxia can assess placental oxygenation and function. Measuring precise BOLD changes in the placenta requires a…
SE(3)-Equivariant and Noise-Invariant 3D Rigid Motion Tracking in Brain MRI
Benjamin Billot, Neel Dey, Daniel Moyer +5
Rigid motion tracking is paramount in many medical imaging applications where movements need to be detected, corrected, or accounted for. Modern strategies rely on convolutional ne…
Intraoperative 2D/3D Image Registration via Differentiable X-ray Rendering
Vivek Gopalakrishnan, Neel Dey, Polina Golland
Surgical decisions are informed by aligning rapid portable 2D intraoperative images (e.g., X-rays) to a high-fidelity 3D preoperative reference scan (e.g., CT). 2D/3D image registr…
Dynamic Neural Fields for Learning Atlases of 4D Fetal MRI Time-series
Zeen Chi, Zhongxiao Cong, Clinton J. Wang +6
We present a method for fast biomedical image atlas construction using neural fields. Atlases are key to biomedical image analysis tasks, yet conventional and deep network estimati…
Consistency Regularization Improves Placenta Segmentation in Fetal EPI MRI Time Series
Yingcheng Liu, Neerav Karani, Neel Dey +5
The placenta plays a crucial role in fetal development. Automated 3D placenta segmentation from fetal EPI MRI holds promise for advancing prenatal care. This paper proposes an effe…
Boundary-weighted logit consistency improves calibration of segmentation networks
Neerav Karani, Neel Dey, Polina Golland
Neural network prediction probabilities and accuracy are often only weakly-correlated. Inherent label ambiguity in training data for image segmentation aggravates such miscalibrati…
AnyStar: Domain randomized universal star-convex 3D instance segmentation
Neel Dey, S. Mazdak Abulnaga, Benjamin Billot +4
Star-convex shapes arise across bio-microscopy and radiology in the form of nuclei, nodules, metastases, and other units. Existing instance segmentation networks for such structure…
-Equivariant Networks for Spherical Deconvolution in Diffusion MRI
Axel Elaldi, Guido Gerig, Neel Dey
We present Roto-Translation Equivariant Spherical Deconvolution (RT-ESD), an equivariant framework for sparse deconvolution of volumes where each voxel contains…
Dual-Domain Self-Supervised Learning for Accelerated Non-Cartesian MRI Reconstruction
Bo Zhou, Jo Schlemper, Neel Dey +5
While enabling accelerated acquisition and improved reconstruction accuracy, current deep MRI reconstruction networks are typically supervised, require fully sampled data, and are…
Data Consistent Deep Rigid MRI Motion Correction
Nalini M. Singh, Neel Dey, Malte Hoffmann +5
Motion artifacts are a pervasive problem in MRI, leading to misdiagnosis or mischaracterization in population-level imaging studies. Current retrospective rigid intra-slice motion…
ContraReg: Contrastive Learning of Multi-modality Unsupervised Deformable Image Registration
Neel Dey, Jo Schlemper, Seyed Sadegh Mohseni Salehi +3
Establishing voxelwise semantic correspondence across distinct imaging modalities is a foundational yet formidable computer vision task. Current multi-modality registration techniq…