Sotabase

Career

· PhD Student, Massachusetts Institute of Technology2021–
· Undergraduate student, Stanford University2018–2021

Publications (32)

DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking
International Conference on Learning Representations · 2022
650
cited
Learning from Protein Structure with Geometric Vector Perceptrons
International Conference on Learning Representations · 2020
595
cited
Torsional Diffusion for Molecular Conformer Generation
Neural Information Processing Systems · 2022
344
cited
AlphaFold Meets Flow Matching for Generating Protein Ensembles
International Conference on Machine Learning · 2024
192
cited
Equivariant Graph Neural Networks for 3D Macromolecular Structure
arXiv.org · 2021
116
cited
EigenFold: Generative Protein Structure Prediction with Diffusion Models
arXiv.org · 2023
99
cited
Dirichlet Flow Matching with Applications to DNA Sequence Design
International Conference on Machine Learning · 2024
92
cited
Hierarchical, rotation‐equivariant neural networks to select structural models of protein complexes
Proteins: Structure, Function, and Bioinformatics · 2020
64
cited
Diffusion models in protein structure and docking
WIREs Computational Molecular Science · 2024
60
cited
Generative Modeling of Molecular Dynamics Trajectories
Neural Information Processing Systems · 2024
54
cited
Harmonic Self-Conditioned Flow Matching for Multi-Ligand Docking and Binding Site Design
International Conference on Machine Learning · 2023
40
cited
Protein model quality assessment using rotation-equivariant, hierarchical neural networks
arXiv.org · 2020
13
cited
Blind protein-ligand docking with diffusion-based deep generative models.
Biophysical Journal · 2023
11
cited
Harmonic Prior Self-conditioned Flow Matching for Multi-Ligand Docking and Binding Site Design
11
cited
Hierarchical, rotation-equivariant neural networks to predict the structure of protein complexes
arXiv.org · 2020
8
cited
ProtComposer: Compositional Protein Structure Generation with 3D Ellipsoids
International Conference on Learning Representations · 2025
8
cited
Protein model quality assessment using rotation‐equivariant transformations on point clouds
Proteins: Structure, Function, and Bioinformatics · 2023
4
cited
AI-based Methods for Simulating, Sampling, and Predicting Protein Ensembles
arXiv.org · 2025
3
cited
Equivariant Scalar Fields for Molecular Docking with Fast Fourier Transforms
International Conference on Learning Representations · 2023
3
cited
Scalable Multimer Structure Prediction using Diffusion Models
3
cited
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Bowen Jing | Researcher Profile | Sotabase | Sotabase