Publications (13)
Mixture of neural fields for heterogeneous reconstruction in cryo-EM
Axel Levy, Rishwanth Raghu, David Shustin +5
Cryo-electron microscopy (cryo-EM) is an experimental technique for protein structure determination that images an ensemble of macromolecules in near-physiological contexts. While…
Scalable 3D Reconstruction From Single Particle X-Ray Diffraction Images Based on Online Machine Learning
Jay Shenoy, Axel Levy, Frédéric Poitevin +1
X-ray free-electron lasers (XFELs) offer unique capabilities for measuring the structure and dynamics of biomolecules, helping us understand the basic building blocks of life. Nota…
CryoChains: Heterogeneous Reconstruction of Molecular Assembly of Semi-flexible Chains from Cryo-EM Images
Bongjin Koo, Julien Martel, Ariana Peck +3
Cryogenic electron microscopy (cryo-EM) has transformed structural biology by allowing to reconstruct 3D biomolecular structures up to near-atomic resolution. However, the 3D recon…
Multiscale guidance of protein structure prediction with heterogeneous cryo-EM data
Rishwanth Raghu, Axel Levy, Gordon Wetzstein +1
Protein structure prediction models are now capable of generating accurate 3D structural hypotheses from sequence alone. However, they routinely fail to capture the conformational…
Modeling Atomic Conformational Ensembles of Proteins via Test-Time Supervision of Boltz-2 on Cryo-EM Density Maps
Jay Shenoy, Miro Astore, Axel Levy +3
Knowledge of a protein's atomic conformational ensemble is critical to determining its function, yet state-of-the-art ensemble prediction models are limited by lack of high-quality…
Deep Generative Modeling for Volume Reconstruction in Cryo-Electron Microscopy
Claire Donnat, Axel Levy, Frederic Poitevin +2
Recent breakthroughs in high-resolution imaging of biomolecules in solution with cryo-electron microscopy (cryo-EM) have unlocked new doors for the reconstruction of molecular volu…
Heterogeneous reconstruction of deformable atomic models in Cryo-EM
Youssef Nashed, Ariana Peck, Julien Martel +6
Cryogenic electron microscopy (cryo-EM) provides a unique opportunity to study the structural heterogeneity of biomolecules. Being able to explain this heterogeneity with atomic mo…
MELON: NeRF with Unposed Images in SO(3)
Axel Levy, Mark Matthews, Matan Sela +2
Neural radiance fields enable novel-view synthesis and scene reconstruction with photorealistic quality from a few images, but require known and accurate camera poses. Conventional…
Dual Ascent Diffusion for Inverse Problems
Minseo Kim, Axel Levy, Gordon Wetzstein
Ill-posed inverse problems are fundamental in many domains, ranging from astrophysics to medical imaging. Emerging diffusion models provide a powerful prior for solving these probl…
Solving Inverse Problems in Protein Space Using Diffusion-Based Priors
Axel Levy, Eric R. Chan, Sara Fridovich-Keil +3
The interaction of a protein with its environment can be understood and controlled via its 3D structure. Experimental methods for protein structure determination, such as X-ray cry…
CryoAI: Amortized Inference of Poses for Ab Initio Reconstruction of 3D Molecular Volumes from Real Cryo-EM Images
Axel Levy, Frédéric Poitevin, Julien Martel +6
Cryo-electron microscopy (cryo-EM) has become a tool of fundamental importance in structural biology, helping us understand the basic building blocks of life. The algorithmic chall…
Generative Novel View Synthesis with 3D-Aware Diffusion Models
Eric R. Chan, Koki Nagano, Matthew A. Chan +7
We present a diffusion-based model for 3D-aware generative novel view synthesis from as few as a single input image. Our model samples from the distribution of possible renderings…
Amortized Inference for Heterogeneous Reconstruction in Cryo-EM
Axel Levy, Gordon Wetzstein, Julien Martel +2
Cryo-electron microscopy (cryo-EM) is an imaging modality that provides unique insights into the dynamics of proteins and other building blocks of life. The algorithmic challenge o…