Search Results for author: Matthew Ragoza

Found 7 papers, 6 papers with code

Adversarial Consistency for Single Domain Generalization in Medical Image Segmentation

no code implementations28 Jun 2022 Yanwu Xu, Shaoan Xie, Maxwell Reynolds, Matthew Ragoza, Mingming Gong, Kayhan Batmanghelich

An organ segmentation method that can generalize to unseen contrasts and scanner settings can significantly reduce the need for retraining of deep learning models.

Contrastive Learning Domain Generalization +5

Generating 3D Molecules Conditional on Receptor Binding Sites with Deep Generative Models

2 code implementations28 Oct 2021 Matthew Ragoza, Tomohide Masuda, David Ryan Koes

The goal of structure-based drug discovery is to find small molecules that bind to a given target protein.

Drug Discovery valid

Learning a Continuous Representation of 3D Molecular Structures with Deep Generative Models

1 code implementation17 Oct 2020 Matthew Ragoza, Tomohide Masuda, David Ryan Koes

Machine learning in drug discovery has been focused on virtual screening of molecular libraries using discriminative models.

Drug Discovery valid

Generating 3D Molecular Structures Conditional on a Receptor Binding Site with Deep Generative Models

1 code implementation16 Oct 2020 Tomohide Masuda, Matthew Ragoza, David Ryan Koes

We show that valid and unique molecules can be readily sampled from the variational latent space defined by a reference `seed' structure and generated structures have reasonable interactions with the binding site.

valid

Visualizing Convolutional Neural Network Protein-Ligand Scoring

1 code implementation6 Mar 2018 Joshua Hochuli, Alec Helbling, Tamar Skaist, Matthew Ragoza, David Ryan Koes

Here we present three methods for visualizing how individual protein-ligand complexes are interpreted by 3D convolutional neural networks.

Ligand Pose Optimization with Atomic Grid-Based Convolutional Neural Networks

1 code implementation20 Oct 2017 Matthew Ragoza, Lillian Turner, David Ryan Koes

Docking is an important tool in computational drug discovery that aims to predict the binding pose of a ligand to a target protein through a combination of pose scoring and optimization.

Drug Discovery

Protein-Ligand Scoring with Convolutional Neural Networks

2 code implementations8 Dec 2016 Matthew Ragoza, Joshua Hochuli, Elisa Idrobo, Jocelyn Sunseri, David Ryan Koes

A CNN scoring function automatically learns the key features of protein-ligand interactions that correlate with binding.

Drug Discovery Pose Prediction

Cannot find the paper you are looking for? You can Submit a new open access paper.