Search Results for author: Joseph Gomes

Found 7 papers, 4 papers with code

Classical Quantum Optimization with Neural Network Quantum States

1 code implementation Second Workshop on Machine Learning and the Physical Sciences (NeurIPS 2019) 2019 Joseph Gomes, Keri A. McKiernan, Peter Eastman, Vijay S. Pande

The classical simulation of quantum systems typically requires exponential resources.

Disordered Systems and Neural Networks Strongly Correlated Electrons Quantum Physics

Strategies for Pre-training Graph Neural Networks

10 code implementations ICLR 2020 Weihua Hu, Bowen Liu, Joseph Gomes, Marinka Zitnik, Percy Liang, Vijay Pande, Jure Leskovec

Many applications of machine learning require a model to make accurate pre-dictions on test examples that are distributionally different from training ones, while task-specific labels are scarce during training.

Graph Classification Molecular Property Prediction +4

Deep Learning Phase Segregation

no code implementations23 Mar 2018 Amir Barati Farimani, Joseph Gomes, Rishi Sharma, Franklin L. Lee, Vijay S. Pande

Phase segregation, the process by which the components of a binary mixture spontaneously separate, is a key process in the evolution and design of many chemical, mechanical, and biological systems.

Deep Learning the Physics of Transport Phenomena

no code implementations7 Sep 2017 Amir Barati Farimani, Joseph Gomes, Vijay S. Pande

We have developed a new data-driven paradigm for the rapid inference, modeling and simulation of the physics of transport phenomena by deep learning.

Retrosynthetic reaction prediction using neural sequence-to-sequence models

no code implementations6 Jun 2017 Bowen Liu, Bharath Ramsundar, Prasad Kawthekar, Jade Shi, Joseph Gomes, Quang Luu Nguyen, Stephen Ho, Jack Sloane, Paul Wender, Vijay Pande

We describe a fully data driven model that learns to perform a retrosynthetic reaction prediction task, which is treated as a sequence-to-sequence mapping problem.

Machine Translation Translation

Atomic Convolutional Networks for Predicting Protein-Ligand Binding Affinity

3 code implementations30 Mar 2017 Joseph Gomes, Bharath Ramsundar, Evan N. Feinberg, Vijay S. Pande

The atomic convolutional neural network is trained to predict the experimentally determined binding affinity of a protein-ligand complex by direct calculation of the energy associated with the complex, protein, and ligand given the crystal structure of the binding pose.

Drug Discovery Molecular Docking

MoleculeNet: A Benchmark for Molecular Machine Learning

5 code implementations2 Mar 2017 Zhenqin Wu, Bharath Ramsundar, Evan N. Feinberg, Joseph Gomes, Caleb Geniesse, Aneesh S. Pappu, Karl Leswing, Vijay Pande

However, algorithmic progress has been limited due to the lack of a standard benchmark to compare the efficacy of proposed methods; most new algorithms are benchmarked on different datasets making it challenging to gauge the quality of proposed methods.

BIG-bench Machine Learning imbalanced classification

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